-- dump date 20140619_014017 -- class Genbank::misc_feature -- table misc_feature_note -- id note 395019000001 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 395019000002 arsenical-resistance protein; Region: acr3; TIGR00832 395019000003 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395019000004 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395019000005 active site 395019000006 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395019000007 Low molecular weight phosphatase family; Region: LMWPc; cl00105 395019000008 active site 395019000009 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_20; cd07254 395019000010 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019000011 putative metal binding site [ion binding]; other site 395019000012 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 395019000013 dimerization interface [polypeptide binding]; other site 395019000014 putative DNA binding site [nucleotide binding]; other site 395019000015 putative Zn2+ binding site [ion binding]; other site 395019000016 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395019000017 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395019000018 Soluble P-type ATPase [General function prediction only]; Region: COG4087 395019000019 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 395019000020 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019000021 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 395019000022 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019000023 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 395019000024 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 395019000025 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 395019000026 active site 395019000027 phosphorylation site [posttranslational modification] 395019000028 intermolecular recognition site; other site 395019000029 dimerization interface [polypeptide binding]; other site 395019000030 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 395019000031 DNA binding site [nucleotide binding] 395019000032 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 395019000033 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 395019000034 dimerization interface [polypeptide binding]; other site 395019000035 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 395019000036 dimer interface [polypeptide binding]; other site 395019000037 phosphorylation site [posttranslational modification] 395019000038 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 395019000039 ATP binding site [chemical binding]; other site 395019000040 Mg2+ binding site [ion binding]; other site 395019000041 G-X-G motif; other site 395019000042 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019000043 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019000044 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019000045 trimer interface [polypeptide binding]; other site 395019000046 eyelet of channel; other site 395019000047 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019000048 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 395019000049 H-NS histone family; Region: Histone_HNS; pfam00816 395019000050 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 395019000051 Transposase domain (DUF772); Region: DUF772; pfam05598 395019000052 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395019000053 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019000054 Integrase core domain; Region: rve; pfam00665 395019000055 transposase; Validated; Region: PRK08181 395019000056 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 395019000057 Walker A motif; other site 395019000058 ATP binding site [chemical binding]; other site 395019000059 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 395019000060 Ligand Binding Site [chemical binding]; other site 395019000061 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 395019000062 ParB-like nuclease domain; Region: ParBc; pfam02195 395019000063 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 395019000064 active site 395019000065 metal binding site [ion binding]; metal-binding site 395019000066 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 395019000067 PLD-like domain; Region: PLDc_2; pfam13091 395019000068 putative active site [active] 395019000069 catalytic site [active] 395019000070 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 395019000071 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 395019000072 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 395019000073 Walker A motif; other site 395019000074 ATP binding site [chemical binding]; other site 395019000075 Walker B motif; other site 395019000076 TrwC relaxase; Region: TrwC; pfam08751 395019000077 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 395019000078 AAA domain; Region: AAA_30; pfam13604 395019000079 AAA domain; Region: AAA_30; pfam13604 395019000080 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; cl17257 395019000081 DNA binding residues [nucleotide binding] 395019000082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019000083 Integrase core domain; Region: rve; pfam00665 395019000084 Integrase core domain; Region: rve_3; cl15866 395019000085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019000086 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019000087 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 395019000088 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 395019000089 Walker A motif; other site 395019000090 ATP binding site [chemical binding]; other site 395019000091 Walker B motif; other site 395019000092 arginine finger; other site 395019000093 PAAR motif; Region: PAAR_motif; pfam05488 395019000094 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 395019000095 RHS Repeat; Region: RHS_repeat; cl11982 395019000096 RHS Repeat; Region: RHS_repeat; pfam05593 395019000097 RHS Repeat; Region: RHS_repeat; pfam05593 395019000098 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 395019000099 RHS Repeat; Region: RHS_repeat; pfam05593 395019000100 RHS Repeat; Region: RHS_repeat; pfam05593 395019000101 RHS Repeat; Region: RHS_repeat; cl11982 395019000102 RHS protein; Region: RHS; pfam03527 395019000103 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 395019000104 Deoxyribonuclease NucA/NucB; Region: DNase_NucA_NucB; pfam14040 395019000105 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 395019000106 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 395019000107 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 395019000108 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 395019000109 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 395019000110 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 395019000111 Walker A motif; other site 395019000112 ATP binding site [chemical binding]; other site 395019000113 Walker B motif; other site 395019000114 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395019000115 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 395019000116 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 395019000117 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 395019000118 F plasmid transfer operon protein; Region: TraF; pfam13728 395019000119 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 395019000120 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 395019000121 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 395019000122 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 395019000123 TraK protein; Region: TraK; pfam06586 395019000124 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 395019000125 TraE protein; Region: TraE; cl05060 395019000126 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 395019000127 TraU protein; Region: TraU; pfam06834 395019000128 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 395019000129 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395019000130 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 395019000131 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395019000132 catalytic residue [active] 395019000133 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 395019000134 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 395019000135 dimerization domain [polypeptide binding]; other site 395019000136 dimer interface [polypeptide binding]; other site 395019000137 catalytic residues [active] 395019000138 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019000139 Integrase core domain; Region: rve; pfam00665 395019000140 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 395019000141 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019000142 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395019000143 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019000144 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019000145 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 395019000146 Zeta toxin; Region: Zeta_toxin; pfam06414 395019000147 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 395019000148 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 395019000149 active site 395019000150 catalytic triad [active] 395019000151 oxyanion hole [active] 395019000152 Replication initiator protein A; Region: RPA; cl17860 395019000153 ParB-like nuclease domain; Region: ParBc; pfam02195 395019000154 ParA-like protein; Provisional; Region: PHA02518 395019000155 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 395019000156 P-loop; other site 395019000157 Magnesium ion binding site [ion binding]; other site 395019000158 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 395019000159 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 395019000160 active site 395019000161 DNA binding site [nucleotide binding] 395019000162 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 395019000163 DNA binding site [nucleotide binding] 395019000164 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 395019000165 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 395019000166 oligomeric interface; other site 395019000167 putative active site [active] 395019000168 homodimer interface [polypeptide binding]; other site 395019000169 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395019000170 Phage integrase protein; Region: DUF3701; pfam12482 395019000171 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 395019000172 active site 395019000173 DNA binding site [nucleotide binding] 395019000174 Int/Topo IB signature motif; other site 395019000175 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 395019000176 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019000177 non-specific DNA binding site [nucleotide binding]; other site 395019000178 salt bridge; other site 395019000179 sequence-specific DNA binding site [nucleotide binding]; other site 395019000180 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395019000181 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 395019000182 P-loop; other site 395019000183 Magnesium ion binding site [ion binding]; other site 395019000184 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 395019000185 Magnesium ion binding site [ion binding]; other site 395019000186 ParB-like nuclease domain; Region: ParBc; pfam02195 395019000187 Replication initiator protein A; Region: RPA; pfam10134 395019000188 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 395019000189 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 395019000190 putative active site [active] 395019000191 putative PHP Thumb interface [polypeptide binding]; other site 395019000192 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 395019000193 generic binding surface II; other site 395019000194 generic binding surface I; other site 395019000195 DNA Polymerase Y-family; Region: PolY_like; cd03468 395019000196 active site 395019000197 DNA binding site [nucleotide binding] 395019000198 Uncharacterized conserved protein [Function unknown]; Region: COG4544 395019000199 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 395019000200 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 395019000201 active site 395019000202 DNA binding site [nucleotide binding] 395019000203 Int/Topo IB signature motif; other site 395019000204 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 395019000205 DNA binding site [nucleotide binding] 395019000206 active site 395019000207 Int/Topo IB signature motif; other site 395019000208 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395019000209 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395019000210 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 395019000211 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 395019000212 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 395019000213 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395019000214 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 395019000215 DsbD alpha interface [polypeptide binding]; other site 395019000216 catalytic residues [active] 395019000217 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 395019000218 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395019000219 HlyD family secretion protein; Region: HlyD_2; pfam12700 395019000220 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019000221 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 395019000222 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395019000223 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 395019000224 dimerization interface [polypeptide binding]; other site 395019000225 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019000226 Copper resistance protein D; Region: CopD; pfam05425 395019000227 CopC domain; Region: CopC; pfam04234 395019000228 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 395019000229 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 395019000230 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 395019000231 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 395019000232 Outer membrane efflux protein; Region: OEP; pfam02321 395019000233 Outer membrane efflux protein; Region: OEP; pfam02321 395019000234 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 395019000235 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 395019000236 active site 395019000237 phosphorylation site [posttranslational modification] 395019000238 intermolecular recognition site; other site 395019000239 dimerization interface [polypeptide binding]; other site 395019000240 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 395019000241 DNA binding site [nucleotide binding] 395019000242 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 395019000243 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 395019000244 dimerization interface [polypeptide binding]; other site 395019000245 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 395019000246 dimer interface [polypeptide binding]; other site 395019000247 phosphorylation site [posttranslational modification] 395019000248 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 395019000249 ATP binding site [chemical binding]; other site 395019000250 Mg2+ binding site [ion binding]; other site 395019000251 G-X-G motif; other site 395019000252 Domain of unknown function (DUF305); Region: DUF305; cl17794 395019000253 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 395019000254 Coenzyme A binding pocket [chemical binding]; other site 395019000255 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 395019000256 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019000257 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 395019000258 ArsC family; Region: ArsC; pfam03960 395019000259 catalytic residues [active] 395019000260 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019000261 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 395019000262 putative substrate translocation pore; other site 395019000263 DnaA N-terminal domain; Region: DnaA_N; pfam11638 395019000264 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 395019000265 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 395019000266 Walker A motif; other site 395019000267 ATP binding site [chemical binding]; other site 395019000268 Walker B motif; other site 395019000269 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 395019000270 arginine finger; other site 395019000271 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 395019000272 DnaA box-binding interface [nucleotide binding]; other site 395019000273 DNA polymerase III subunit beta; Validated; Region: PRK05643 395019000274 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 395019000275 putative DNA binding surface [nucleotide binding]; other site 395019000276 dimer interface [polypeptide binding]; other site 395019000277 beta-clamp/clamp loader binding surface; other site 395019000278 beta-clamp/translesion DNA polymerase binding surface; other site 395019000279 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 395019000280 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 395019000281 ATP binding site [chemical binding]; other site 395019000282 Mg2+ binding site [ion binding]; other site 395019000283 G-X-G motif; other site 395019000284 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 395019000285 anchoring element; other site 395019000286 dimer interface [polypeptide binding]; other site 395019000287 ATP binding site [chemical binding]; other site 395019000288 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 395019000289 active site 395019000290 putative metal-binding site [ion binding]; other site 395019000291 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 395019000292 Uncharacterized conserved protein [Function unknown]; Region: COG4127 395019000293 Restriction endonuclease; Region: Mrr_cat; pfam04471 395019000294 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 395019000295 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 395019000296 putative heme binding pocket [chemical binding]; other site 395019000297 RNA polymerase sigma factor; Provisional; Region: PRK12511 395019000298 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019000299 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 395019000300 DNA binding residues [nucleotide binding] 395019000301 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 395019000302 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 395019000303 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019000304 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 395019000305 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019000306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395019000307 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019000308 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 395019000309 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019000310 Integrase core domain; Region: rve; pfam00665 395019000311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 395019000312 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 395019000313 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 395019000314 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 395019000315 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 395019000316 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 395019000317 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019000318 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 395019000319 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 395019000320 Uncharacterized conserved protein [Function unknown]; Region: COG2128 395019000321 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 395019000322 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 395019000323 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 395019000324 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 395019000325 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 395019000326 Restriction endonuclease [Defense mechanisms]; Region: COG3587 395019000327 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 395019000328 ATP binding site [chemical binding]; other site 395019000329 putative Mg++ binding site [ion binding]; other site 395019000330 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 395019000331 DNA methylase; Region: N6_N4_Mtase; pfam01555 395019000332 DNA methylase; Region: N6_N4_Mtase; cl17433 395019000333 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019000334 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 395019000335 active site 395019000336 phosphorylation site [posttranslational modification] 395019000337 intermolecular recognition site; other site 395019000338 dimerization interface [polypeptide binding]; other site 395019000339 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 395019000340 DNA binding residues [nucleotide binding] 395019000341 dimerization interface [polypeptide binding]; other site 395019000342 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019000343 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019000344 trimer interface [polypeptide binding]; other site 395019000345 eyelet of channel; other site 395019000346 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 395019000347 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 395019000348 active site 395019000349 phosphorylation site [posttranslational modification] 395019000350 intermolecular recognition site; other site 395019000351 dimerization interface [polypeptide binding]; other site 395019000352 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 395019000353 DNA binding site [nucleotide binding] 395019000354 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 395019000355 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019000356 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 395019000357 dimer interface [polypeptide binding]; other site 395019000358 phosphorylation site [posttranslational modification] 395019000359 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 395019000360 ATP binding site [chemical binding]; other site 395019000361 Mg2+ binding site [ion binding]; other site 395019000362 G-X-G motif; other site 395019000363 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395019000364 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 395019000365 dimer interface [polypeptide binding]; other site 395019000366 conserved gate region; other site 395019000367 putative PBP binding loops; other site 395019000368 ABC-ATPase subunit interface; other site 395019000369 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395019000370 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395019000371 Walker A/P-loop; other site 395019000372 ATP binding site [chemical binding]; other site 395019000373 Q-loop/lid; other site 395019000374 ABC transporter signature motif; other site 395019000375 Walker B; other site 395019000376 D-loop; other site 395019000377 H-loop/switch region; other site 395019000378 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 395019000379 NMT1/THI5 like; Region: NMT1; pfam09084 395019000380 membrane-bound complex binding site; other site 395019000381 CAAX protease self-immunity; Region: Abi; pfam02517 395019000382 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 395019000383 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 395019000384 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 395019000385 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 395019000386 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 395019000387 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 395019000388 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 395019000389 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 395019000390 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 395019000391 LrgA family; Region: LrgA; pfam03788 395019000392 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019000393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019000394 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 395019000395 putative dimerization interface [polypeptide binding]; other site 395019000396 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395019000397 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 395019000398 putative substrate translocation pore; other site 395019000399 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 395019000400 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019000401 MarR family; Region: MarR_2; cl17246 395019000402 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019000403 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 395019000404 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 395019000405 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 395019000406 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 395019000407 GspL periplasmic domain; Region: GspL_C; pfam12693 395019000408 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 395019000409 type II secretion system protein I; Region: gspI; TIGR01707 395019000410 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 395019000411 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 395019000412 Type II transport protein GspH; Region: GspH; pfam12019 395019000413 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 395019000414 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 395019000415 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 395019000416 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 395019000417 type II secretion system protein F; Region: GspF; TIGR02120 395019000418 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395019000419 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395019000420 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 395019000421 type II secretion system protein E; Region: type_II_gspE; TIGR02533 395019000422 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 395019000423 Walker A motif; other site 395019000424 ATP binding site [chemical binding]; other site 395019000425 Walker B motif; other site 395019000426 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 395019000427 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 395019000428 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 395019000429 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 395019000430 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395019000431 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395019000432 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 395019000433 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395019000434 catalytic residue [active] 395019000435 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395019000436 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 395019000437 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 395019000438 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 395019000439 IHF dimer interface [polypeptide binding]; other site 395019000440 IHF - DNA interface [nucleotide binding]; other site 395019000441 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 395019000442 Uncharacterized conserved protein [Function unknown]; Region: COG4121 395019000443 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 395019000444 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 395019000445 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 395019000446 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395019000447 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 395019000448 putative DNA binding site [nucleotide binding]; other site 395019000449 putative Zn2+ binding site [ion binding]; other site 395019000450 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 395019000451 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 395019000452 catalytic triad [active] 395019000453 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 395019000454 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 395019000455 active site 395019000456 FMN binding site [chemical binding]; other site 395019000457 substrate binding site [chemical binding]; other site 395019000458 homotetramer interface [polypeptide binding]; other site 395019000459 catalytic residue [active] 395019000460 Proteins containing SET domain [General function prediction only]; Region: COG2940 395019000461 SET domain; Region: SET; pfam00856 395019000462 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 395019000463 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019000464 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 395019000465 dimer interface [polypeptide binding]; other site 395019000466 phosphorylation site [posttranslational modification] 395019000467 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 395019000468 ATP binding site [chemical binding]; other site 395019000469 Mg2+ binding site [ion binding]; other site 395019000470 G-X-G motif; other site 395019000471 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395019000472 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 395019000473 active site 395019000474 phosphorylation site [posttranslational modification] 395019000475 intermolecular recognition site; other site 395019000476 dimerization interface [polypeptide binding]; other site 395019000477 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 395019000478 DNA binding site [nucleotide binding] 395019000479 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 395019000480 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 395019000481 aromatic arch; other site 395019000482 DCoH dimer interaction site [polypeptide binding]; other site 395019000483 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 395019000484 DCoH tetramer interaction site [polypeptide binding]; other site 395019000485 substrate binding site [chemical binding]; other site 395019000486 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 395019000487 cofactor binding site; other site 395019000488 metal binding site [ion binding]; metal-binding site 395019000489 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019000490 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 395019000491 putative DNA binding site [nucleotide binding]; other site 395019000492 putative Zn2+ binding site [ion binding]; other site 395019000493 AsnC family; Region: AsnC_trans_reg; pfam01037 395019000494 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 395019000495 putative active site [active] 395019000496 putative metal binding residues [ion binding]; other site 395019000497 signature motif; other site 395019000498 putative triphosphate binding site [ion binding]; other site 395019000499 dimer interface [polypeptide binding]; other site 395019000500 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019000501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019000502 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 395019000503 dimerization interface [polypeptide binding]; other site 395019000504 choline dehydrogenase; Validated; Region: PRK02106 395019000505 lycopene cyclase; Region: lycopene_cycl; TIGR01789 395019000506 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395019000507 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395019000508 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395019000509 Walker A/P-loop; other site 395019000510 ATP binding site [chemical binding]; other site 395019000511 Q-loop/lid; other site 395019000512 ABC transporter signature motif; other site 395019000513 Walker B; other site 395019000514 D-loop; other site 395019000515 H-loop/switch region; other site 395019000516 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395019000517 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395019000518 Walker A/P-loop; other site 395019000519 ATP binding site [chemical binding]; other site 395019000520 Q-loop/lid; other site 395019000521 ABC transporter signature motif; other site 395019000522 Walker B; other site 395019000523 D-loop; other site 395019000524 H-loop/switch region; other site 395019000525 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395019000526 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 395019000527 putative ligand binding site [chemical binding]; other site 395019000528 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019000529 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395019000530 TM-ABC transporter signature motif; other site 395019000531 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395019000532 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395019000533 TM-ABC transporter signature motif; other site 395019000534 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019000535 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 395019000536 putative ligand binding site [chemical binding]; other site 395019000537 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395019000538 TM-ABC transporter signature motif; other site 395019000539 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395019000540 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395019000541 TM-ABC transporter signature motif; other site 395019000542 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395019000543 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395019000544 Walker A/P-loop; other site 395019000545 ATP binding site [chemical binding]; other site 395019000546 Q-loop/lid; other site 395019000547 ABC transporter signature motif; other site 395019000548 Walker B; other site 395019000549 D-loop; other site 395019000550 H-loop/switch region; other site 395019000551 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395019000552 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395019000553 Walker A/P-loop; other site 395019000554 ATP binding site [chemical binding]; other site 395019000555 Q-loop/lid; other site 395019000556 ABC transporter signature motif; other site 395019000557 Walker B; other site 395019000558 D-loop; other site 395019000559 H-loop/switch region; other site 395019000560 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 395019000561 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 395019000562 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 395019000563 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 395019000564 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 395019000565 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 395019000566 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395019000567 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 395019000568 P-loop; other site 395019000569 Magnesium ion binding site [ion binding]; other site 395019000570 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 395019000571 Magnesium ion binding site [ion binding]; other site 395019000572 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 395019000573 ParB-like nuclease domain; Region: ParBc; pfam02195 395019000574 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 395019000575 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 395019000576 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 395019000577 ATP synthase I chain; Region: ATP_synt_I; pfam03899 395019000578 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 395019000579 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 395019000580 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 395019000581 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 395019000582 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 395019000583 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 395019000584 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 395019000585 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 395019000586 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 395019000587 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 395019000588 beta subunit interaction interface [polypeptide binding]; other site 395019000589 Walker A motif; other site 395019000590 ATP binding site [chemical binding]; other site 395019000591 Walker B motif; other site 395019000592 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395019000593 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 395019000594 core domain interface [polypeptide binding]; other site 395019000595 delta subunit interface [polypeptide binding]; other site 395019000596 epsilon subunit interface [polypeptide binding]; other site 395019000597 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 395019000598 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 395019000599 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 395019000600 alpha subunit interaction interface [polypeptide binding]; other site 395019000601 Walker A motif; other site 395019000602 ATP binding site [chemical binding]; other site 395019000603 Walker B motif; other site 395019000604 inhibitor binding site; inhibition site 395019000605 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 395019000606 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 395019000607 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 395019000608 gamma subunit interface [polypeptide binding]; other site 395019000609 epsilon subunit interface [polypeptide binding]; other site 395019000610 LBP interface [polypeptide binding]; other site 395019000611 AMP-binding domain protein; Validated; Region: PRK08315 395019000612 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395019000613 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 395019000614 acyl-activating enzyme (AAE) consensus motif; other site 395019000615 putative AMP binding site [chemical binding]; other site 395019000616 putative active site [active] 395019000617 putative CoA binding site [chemical binding]; other site 395019000618 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 395019000619 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395019000620 substrate binding pocket [chemical binding]; other site 395019000621 membrane-bound complex binding site; other site 395019000622 hinge residues; other site 395019000623 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 395019000624 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 395019000625 substrate binding site [chemical binding]; other site 395019000626 active site 395019000627 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 395019000628 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 395019000629 ATP binding site [chemical binding]; other site 395019000630 putative Mg++ binding site [ion binding]; other site 395019000631 helicase superfamily c-terminal domain; Region: HELICc; smart00490 395019000632 nucleotide binding region [chemical binding]; other site 395019000633 ATP-binding site [chemical binding]; other site 395019000634 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 395019000635 Predicted transcriptional regulator [Transcription]; Region: COG3905 395019000636 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 395019000637 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 395019000638 Glutamate binding site [chemical binding]; other site 395019000639 NAD binding site [chemical binding]; other site 395019000640 catalytic residues [active] 395019000641 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395019000642 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019000643 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395019000644 dimerization interface [polypeptide binding]; other site 395019000645 ligand binding site [chemical binding]; other site 395019000646 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395019000647 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395019000648 active site 395019000649 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019000650 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019000651 putative aminotransferase; Provisional; Region: PRK12414 395019000652 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 395019000653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019000654 homodimer interface [polypeptide binding]; other site 395019000655 catalytic residue [active] 395019000656 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 395019000657 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 395019000658 substrate binding pocket [chemical binding]; other site 395019000659 membrane-bound complex binding site; other site 395019000660 hinge residues; other site 395019000661 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395019000662 FAD binding domain; Region: FAD_binding_4; pfam01565 395019000663 Predicted transcriptional regulators [Transcription]; Region: COG1695 395019000664 Transcriptional regulator PadR-like family; Region: PadR; cl17335 395019000665 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 395019000666 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 395019000667 DNA binding residues [nucleotide binding] 395019000668 dimer interface [polypeptide binding]; other site 395019000669 putative metal binding site [ion binding]; other site 395019000670 Heavy-metal-associated domain; Region: HMA; pfam00403 395019000671 metal-binding site [ion binding] 395019000672 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 395019000673 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395019000674 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 395019000675 Conserved TM helix; Region: TM_helix; pfam05552 395019000676 Conserved TM helix; Region: TM_helix; pfam05552 395019000677 ethanolamine permease; Region: 2A0305; TIGR00908 395019000678 hypothetical protein; Provisional; Region: PHA02764 395019000679 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 395019000680 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 395019000681 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 395019000682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019000683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019000684 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 395019000685 putative effector binding pocket; other site 395019000686 putative dimerization interface [polypeptide binding]; other site 395019000687 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 395019000688 putative substrate translocation pore; other site 395019000689 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395019000690 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395019000691 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 395019000692 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019000693 NAD(P) binding site [chemical binding]; other site 395019000694 catalytic residues [active] 395019000695 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395019000696 Helix-turn-helix domain; Region: HTH_18; pfam12833 395019000697 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019000698 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 395019000699 thiamine pyrophosphate protein; Validated; Region: PRK08199 395019000700 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395019000701 PYR/PP interface [polypeptide binding]; other site 395019000702 dimer interface [polypeptide binding]; other site 395019000703 TPP binding site [chemical binding]; other site 395019000704 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395019000705 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 395019000706 TPP-binding site [chemical binding]; other site 395019000707 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 395019000708 oligomeric interface; other site 395019000709 putative active site [active] 395019000710 homodimer interface [polypeptide binding]; other site 395019000711 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 395019000712 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 395019000713 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 395019000714 Alginate lyase; Region: Alginate_lyase; pfam05426 395019000715 glycine dehydrogenase; Provisional; Region: PRK05367 395019000716 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 395019000717 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019000718 catalytic residue [active] 395019000719 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 395019000720 tetramer interface [polypeptide binding]; other site 395019000721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019000722 catalytic residue [active] 395019000723 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 395019000724 lipoyl attachment site [posttranslational modification]; other site 395019000725 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 395019000726 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395019000727 putative oxidoreductase; Provisional; Region: PRK11579 395019000728 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 395019000729 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 395019000730 Part of AAA domain; Region: AAA_19; pfam13245 395019000731 Family description; Region: UvrD_C_2; pfam13538 395019000732 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 395019000733 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 395019000734 Uncharacterized conserved protein [Function unknown]; Region: COG4278 395019000735 TIGR04222 domain; Region: near_uncomplex 395019000736 Flagellar protein FliT; Region: FliT; pfam05400 395019000737 flagellar capping protein; Reviewed; Region: fliD; PRK08032 395019000738 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 395019000739 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395019000740 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 395019000741 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 395019000742 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 395019000743 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 395019000744 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 395019000745 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 395019000746 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 395019000747 putative hydrolase; Provisional; Region: PRK10976 395019000748 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 395019000749 active site 395019000750 motif I; other site 395019000751 motif II; other site 395019000752 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 395019000753 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 395019000754 amphipathic channel; other site 395019000755 Asn-Pro-Ala signature motifs; other site 395019000756 H-NS histone family; Region: Histone_HNS; pfam00816 395019000757 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395019000758 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 395019000759 putative ADP-binding pocket [chemical binding]; other site 395019000760 transcriptional activator FlhD; Provisional; Region: PRK02909 395019000761 transcriptional activator FlhC; Provisional; Region: PRK12722 395019000762 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 395019000763 flagellar motor protein MotA; Validated; Region: PRK09110 395019000764 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395019000765 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 395019000766 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019000767 ligand binding site [chemical binding]; other site 395019000768 Response regulator receiver domain; Region: Response_reg; pfam00072 395019000769 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 395019000770 active site 395019000771 phosphorylation site [posttranslational modification] 395019000772 intermolecular recognition site; other site 395019000773 dimerization interface [polypeptide binding]; other site 395019000774 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 395019000775 putative binding surface; other site 395019000776 active site 395019000777 CheY binding; Region: CheY-binding; pfam09078 395019000778 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 395019000779 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 395019000780 ATP binding site [chemical binding]; other site 395019000781 Mg2+ binding site [ion binding]; other site 395019000782 G-X-G motif; other site 395019000783 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 395019000784 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 395019000785 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 395019000786 dimer interface [polypeptide binding]; other site 395019000787 ligand binding site [chemical binding]; other site 395019000788 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 395019000789 dimerization interface [polypeptide binding]; other site 395019000790 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019000791 dimer interface [polypeptide binding]; other site 395019000792 putative CheW interface [polypeptide binding]; other site 395019000793 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 395019000794 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395019000795 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 395019000796 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 395019000797 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 395019000798 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 395019000799 active site 395019000800 phosphorylation site [posttranslational modification] 395019000801 intermolecular recognition site; other site 395019000802 dimerization interface [polypeptide binding]; other site 395019000803 CheB methylesterase; Region: CheB_methylest; pfam01339 395019000804 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 395019000805 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 395019000806 active site 395019000807 phosphorylation site [posttranslational modification] 395019000808 intermolecular recognition site; other site 395019000809 dimerization interface [polypeptide binding]; other site 395019000810 chemotaxis regulator CheZ; Provisional; Region: PRK11166 395019000811 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 395019000812 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 395019000813 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 395019000814 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 395019000815 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 395019000816 FHIPEP family; Region: FHIPEP; pfam00771 395019000817 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 395019000818 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 395019000819 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 395019000820 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 395019000821 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019000822 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 395019000823 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 395019000824 DNA binding residues [nucleotide binding] 395019000825 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 395019000826 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 395019000827 homotetramer interface [polypeptide binding]; other site 395019000828 ligand binding site [chemical binding]; other site 395019000829 catalytic site [active] 395019000830 NAD binding site [chemical binding]; other site 395019000831 Predicted membrane protein [Function unknown]; Region: COG1950 395019000832 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 395019000833 FAD binding site [chemical binding]; other site 395019000834 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395019000835 Amidase; Region: Amidase; cl11426 395019000836 Dienelactone hydrolase family; Region: DLH; pfam01738 395019000837 Nitronate monooxygenase; Region: NMO; pfam03060 395019000838 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 395019000839 FMN binding site [chemical binding]; other site 395019000840 substrate binding site [chemical binding]; other site 395019000841 putative catalytic residue [active] 395019000842 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019000843 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395019000844 dimerization interface [polypeptide binding]; other site 395019000845 ligand binding site [chemical binding]; other site 395019000846 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019000847 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 395019000848 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019000849 MULE transposase domain; Region: MULE; pfam10551 395019000850 H-NS histone family; Region: Histone_HNS; pfam00816 395019000851 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 395019000852 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 395019000853 Cation efflux family; Region: Cation_efflux; pfam01545 395019000854 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019000855 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 395019000856 putative DNA binding site [nucleotide binding]; other site 395019000857 putative Zn2+ binding site [ion binding]; other site 395019000858 AsnC family; Region: AsnC_trans_reg; pfam01037 395019000859 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 395019000860 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 395019000861 active site 395019000862 substrate binding site [chemical binding]; other site 395019000863 catalytic site [active] 395019000864 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 395019000865 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 395019000866 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 395019000867 Predicted methyltransferases [General function prediction only]; Region: COG0313 395019000868 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 395019000869 putative SAM binding site [chemical binding]; other site 395019000870 putative homodimer interface [polypeptide binding]; other site 395019000871 hypothetical protein; Provisional; Region: PRK14673 395019000872 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 395019000873 active site 395019000874 dimer interface [polypeptide binding]; other site 395019000875 outer membrane lipoprotein; Provisional; Region: PRK11023 395019000876 BON domain; Region: BON; pfam04972 395019000877 BON domain; Region: BON; pfam04972 395019000878 Cytochrome c; Region: Cytochrom_C; cl11414 395019000879 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 395019000880 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 395019000881 active site 395019000882 tetramer interface [polypeptide binding]; other site 395019000883 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 395019000884 D-galactonate transporter; Region: 2A0114; TIGR00893 395019000885 putative substrate translocation pore; other site 395019000886 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 395019000887 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 395019000888 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395019000889 FtsX-like permease family; Region: FtsX; pfam02687 395019000890 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395019000891 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395019000892 Walker A/P-loop; other site 395019000893 ATP binding site [chemical binding]; other site 395019000894 Q-loop/lid; other site 395019000895 ABC transporter signature motif; other site 395019000896 Walker B; other site 395019000897 D-loop; other site 395019000898 H-loop/switch region; other site 395019000899 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395019000900 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019000901 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 395019000902 Uncharacterized conserved protein [Function unknown]; Region: COG1656 395019000903 Protein of unknown function DUF82; Region: DUF82; pfam01927 395019000904 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 395019000905 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395019000906 LysE type translocator; Region: LysE; cl00565 395019000907 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019000908 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 395019000909 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019000910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019000911 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 395019000912 dimerization interface [polypeptide binding]; other site 395019000913 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 395019000914 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 395019000915 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 395019000916 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 395019000917 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 395019000918 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 395019000919 substrate binding site [chemical binding]; other site 395019000920 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395019000921 active site 395019000922 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 395019000923 Malic enzyme, N-terminal domain; Region: malic; pfam00390 395019000924 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 395019000925 putative NAD(P) binding site [chemical binding]; other site 395019000926 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 395019000927 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 395019000928 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 395019000929 dimer interface [polypeptide binding]; other site 395019000930 PYR/PP interface [polypeptide binding]; other site 395019000931 TPP binding site [chemical binding]; other site 395019000932 substrate binding site [chemical binding]; other site 395019000933 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 395019000934 TPP-binding site; other site 395019000935 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 395019000936 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 395019000937 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 395019000938 dimer interface [polypeptide binding]; other site 395019000939 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 395019000940 active site 395019000941 Fe binding site [ion binding]; other site 395019000942 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019000943 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 395019000944 putative DNA binding site [nucleotide binding]; other site 395019000945 putative Zn2+ binding site [ion binding]; other site 395019000946 AsnC family; Region: AsnC_trans_reg; pfam01037 395019000947 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395019000948 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019000949 Coenzyme A binding pocket [chemical binding]; other site 395019000950 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019000951 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019000952 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 395019000953 Protein of unknown function; Region: DUF3658; pfam12395 395019000954 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 395019000955 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 395019000956 FAD binding pocket [chemical binding]; other site 395019000957 FAD binding motif [chemical binding]; other site 395019000958 phosphate binding motif [ion binding]; other site 395019000959 beta-alpha-beta structure motif; other site 395019000960 NAD(p) ribose binding residues [chemical binding]; other site 395019000961 NAD binding pocket [chemical binding]; other site 395019000962 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 395019000963 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 395019000964 catalytic loop [active] 395019000965 iron binding site [ion binding]; other site 395019000966 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 395019000967 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 395019000968 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 395019000969 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 395019000970 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 395019000971 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 395019000972 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 395019000973 active site 395019000974 catalytic triad [active] 395019000975 oxyanion hole [active] 395019000976 elongation factor Tu; Reviewed; Region: PRK00049 395019000977 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 395019000978 G1 box; other site 395019000979 GEF interaction site [polypeptide binding]; other site 395019000980 GTP/Mg2+ binding site [chemical binding]; other site 395019000981 Switch I region; other site 395019000982 G2 box; other site 395019000983 G3 box; other site 395019000984 Switch II region; other site 395019000985 G4 box; other site 395019000986 G5 box; other site 395019000987 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 395019000988 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 395019000989 Antibiotic Binding Site [chemical binding]; other site 395019000990 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 395019000991 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 395019000992 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 395019000993 putative homodimer interface [polypeptide binding]; other site 395019000994 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 395019000995 heterodimer interface [polypeptide binding]; other site 395019000996 homodimer interface [polypeptide binding]; other site 395019000997 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 395019000998 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 395019000999 23S rRNA interface [nucleotide binding]; other site 395019001000 L7/L12 interface [polypeptide binding]; other site 395019001001 putative thiostrepton binding site; other site 395019001002 L25 interface [polypeptide binding]; other site 395019001003 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 395019001004 mRNA/rRNA interface [nucleotide binding]; other site 395019001005 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 395019001006 23S rRNA interface [nucleotide binding]; other site 395019001007 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 395019001008 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 395019001009 peripheral dimer interface [polypeptide binding]; other site 395019001010 core dimer interface [polypeptide binding]; other site 395019001011 L10 interface [polypeptide binding]; other site 395019001012 L11 interface [polypeptide binding]; other site 395019001013 putative EF-Tu interaction site [polypeptide binding]; other site 395019001014 putative EF-G interaction site [polypeptide binding]; other site 395019001015 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 395019001016 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 395019001017 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 395019001018 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 395019001019 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 395019001020 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 395019001021 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 395019001022 RPB3 interaction site [polypeptide binding]; other site 395019001023 RPB1 interaction site [polypeptide binding]; other site 395019001024 RPB11 interaction site [polypeptide binding]; other site 395019001025 RPB10 interaction site [polypeptide binding]; other site 395019001026 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 395019001027 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 395019001028 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 395019001029 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 395019001030 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 395019001031 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 395019001032 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 395019001033 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 395019001034 DNA binding site [nucleotide binding] 395019001035 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 395019001036 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 395019001037 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 395019001038 ATP binding site [chemical binding]; other site 395019001039 putative Mg++ binding site [ion binding]; other site 395019001040 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 395019001041 nucleotide binding region [chemical binding]; other site 395019001042 ATP-binding site [chemical binding]; other site 395019001043 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 395019001044 HRDC domain; Region: HRDC; pfam00570 395019001045 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 395019001046 S17 interaction site [polypeptide binding]; other site 395019001047 S8 interaction site; other site 395019001048 16S rRNA interaction site [nucleotide binding]; other site 395019001049 streptomycin interaction site [chemical binding]; other site 395019001050 23S rRNA interaction site [nucleotide binding]; other site 395019001051 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 395019001052 30S ribosomal protein S7; Validated; Region: PRK05302 395019001053 elongation factor G; Reviewed; Region: PRK00007 395019001054 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 395019001055 G1 box; other site 395019001056 putative GEF interaction site [polypeptide binding]; other site 395019001057 GTP/Mg2+ binding site [chemical binding]; other site 395019001058 Switch I region; other site 395019001059 G2 box; other site 395019001060 G3 box; other site 395019001061 Switch II region; other site 395019001062 G4 box; other site 395019001063 G5 box; other site 395019001064 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 395019001065 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 395019001066 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 395019001067 elongation factor Tu; Reviewed; Region: PRK00049 395019001068 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 395019001069 G1 box; other site 395019001070 GEF interaction site [polypeptide binding]; other site 395019001071 GTP/Mg2+ binding site [chemical binding]; other site 395019001072 Switch I region; other site 395019001073 G2 box; other site 395019001074 G3 box; other site 395019001075 Switch II region; other site 395019001076 G4 box; other site 395019001077 G5 box; other site 395019001078 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 395019001079 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 395019001080 Antibiotic Binding Site [chemical binding]; other site 395019001081 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 395019001082 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 395019001083 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 395019001084 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 395019001085 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 395019001086 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 395019001087 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 395019001088 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 395019001089 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 395019001090 putative translocon binding site; other site 395019001091 protein-rRNA interface [nucleotide binding]; other site 395019001092 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 395019001093 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 395019001094 G-X-X-G motif; other site 395019001095 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 395019001096 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 395019001097 23S rRNA interface [nucleotide binding]; other site 395019001098 5S rRNA interface [nucleotide binding]; other site 395019001099 putative antibiotic binding site [chemical binding]; other site 395019001100 L25 interface [polypeptide binding]; other site 395019001101 L27 interface [polypeptide binding]; other site 395019001102 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 395019001103 23S rRNA interface [nucleotide binding]; other site 395019001104 putative translocon interaction site; other site 395019001105 signal recognition particle (SRP54) interaction site; other site 395019001106 L23 interface [polypeptide binding]; other site 395019001107 trigger factor interaction site; other site 395019001108 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 395019001109 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 395019001110 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 395019001111 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 395019001112 RNA binding site [nucleotide binding]; other site 395019001113 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 395019001114 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 395019001115 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 395019001116 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 395019001117 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 395019001118 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 395019001119 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 395019001120 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 395019001121 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 395019001122 5S rRNA interface [nucleotide binding]; other site 395019001123 L27 interface [polypeptide binding]; other site 395019001124 23S rRNA interface [nucleotide binding]; other site 395019001125 L5 interface [polypeptide binding]; other site 395019001126 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 395019001127 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 395019001128 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 395019001129 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 395019001130 23S rRNA binding site [nucleotide binding]; other site 395019001131 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 395019001132 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 395019001133 SecY translocase; Region: SecY; pfam00344 395019001134 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 395019001135 rRNA binding site [nucleotide binding]; other site 395019001136 predicted 30S ribosome binding site; other site 395019001137 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 395019001138 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 395019001139 30S ribosomal protein S13; Region: bact_S13; TIGR03631 395019001140 30S ribosomal protein S11; Validated; Region: PRK05309 395019001141 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 395019001142 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 395019001143 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 395019001144 RNA binding surface [nucleotide binding]; other site 395019001145 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 395019001146 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 395019001147 alphaNTD homodimer interface [polypeptide binding]; other site 395019001148 alphaNTD - beta interaction site [polypeptide binding]; other site 395019001149 alphaNTD - beta' interaction site [polypeptide binding]; other site 395019001150 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 395019001151 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 395019001152 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 395019001153 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 395019001154 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395019001155 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 395019001156 DsbD alpha interface [polypeptide binding]; other site 395019001157 catalytic residues [active] 395019001158 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 395019001159 dimer interface [polypeptide binding]; other site 395019001160 active site 395019001161 aspartate-rich active site metal binding site; other site 395019001162 allosteric magnesium binding site [ion binding]; other site 395019001163 Schiff base residues; other site 395019001164 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 395019001165 G1 box; other site 395019001166 GTP/Mg2+ binding site [chemical binding]; other site 395019001167 Switch I region; other site 395019001168 G2 box; other site 395019001169 G3 box; other site 395019001170 Switch II region; other site 395019001171 G4 box; other site 395019001172 G5 box; other site 395019001173 Cytochrome c553 [Energy production and conversion]; Region: COG2863 395019001174 Cytochrome c; Region: Cytochrom_C; cl11414 395019001175 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 395019001176 ResB-like family; Region: ResB; pfam05140 395019001177 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 395019001178 ResB-like family; Region: ResB; pfam05140 395019001179 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 395019001180 TMAO/DMSO reductase; Reviewed; Region: PRK05363 395019001181 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 395019001182 Moco binding site; other site 395019001183 metal coordination site [ion binding]; other site 395019001184 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 395019001185 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 395019001186 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 395019001187 putative iron binding site [ion binding]; other site 395019001188 putative transposase OrfB; Reviewed; Region: PHA02517 395019001189 HTH-like domain; Region: HTH_21; pfam13276 395019001190 Integrase core domain; Region: rve; pfam00665 395019001191 Integrase core domain; Region: rve_2; pfam13333 395019001192 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019001193 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019001194 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019001195 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 395019001196 Transglycosylase; Region: Transgly; pfam00912 395019001197 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 395019001198 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 395019001199 Secretin and TonB N terminus short domain; Region: STN; pfam07660 395019001200 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 395019001201 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395019001202 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 395019001203 Shikimate kinase; Region: SKI; pfam01202 395019001204 magnesium binding site [ion binding]; other site 395019001205 putative shikimate binding site; other site 395019001206 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 395019001207 active site 395019001208 dimer interface [polypeptide binding]; other site 395019001209 metal binding site [ion binding]; metal-binding site 395019001210 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 395019001211 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395019001212 Zn2+ binding site [ion binding]; other site 395019001213 Mg2+ binding site [ion binding]; other site 395019001214 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 395019001215 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395019001216 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 395019001217 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 395019001218 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 395019001219 dimer interface [polypeptide binding]; other site 395019001220 conserved gate region; other site 395019001221 putative PBP binding loops; other site 395019001222 ABC-ATPase subunit interface; other site 395019001223 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395019001224 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 395019001225 dimer interface [polypeptide binding]; other site 395019001226 conserved gate region; other site 395019001227 putative PBP binding loops; other site 395019001228 ABC-ATPase subunit interface; other site 395019001229 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395019001230 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019001231 Walker A/P-loop; other site 395019001232 ATP binding site [chemical binding]; other site 395019001233 Q-loop/lid; other site 395019001234 ABC transporter signature motif; other site 395019001235 Walker B; other site 395019001236 D-loop; other site 395019001237 H-loop/switch region; other site 395019001238 TOBE domain; Region: TOBE_2; pfam08402 395019001239 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 395019001240 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 395019001241 active site 395019001242 catalytic site [active] 395019001243 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 395019001244 Transposase IS200 like; Region: Y1_Tnp; cl00848 395019001245 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 395019001246 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 395019001247 active site 395019001248 dimer interface [polypeptide binding]; other site 395019001249 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 395019001250 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 395019001251 active site 395019001252 FMN binding site [chemical binding]; other site 395019001253 substrate binding site [chemical binding]; other site 395019001254 3Fe-4S cluster binding site [ion binding]; other site 395019001255 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 395019001256 domain interface; other site 395019001257 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 395019001258 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019001259 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019001260 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 395019001261 amino acid carrier protein; Region: agcS; TIGR00835 395019001262 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 395019001263 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 395019001264 hydroxyglutarate oxidase; Provisional; Region: PRK11728 395019001265 benzoate transport; Region: 2A0115; TIGR00895 395019001266 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 395019001267 putative substrate translocation pore; other site 395019001268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019001269 NAD(P) binding site [chemical binding]; other site 395019001270 active site 395019001271 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 395019001272 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 395019001273 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 395019001274 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 395019001275 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 395019001276 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 395019001277 thiS-thiF/thiG interaction site; other site 395019001278 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 395019001279 ThiS interaction site; other site 395019001280 putative active site [active] 395019001281 tetramer interface [polypeptide binding]; other site 395019001282 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 395019001283 thiamine phosphate binding site [chemical binding]; other site 395019001284 active site 395019001285 pyrophosphate binding site [ion binding]; other site 395019001286 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 395019001287 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 395019001288 Walker A/P-loop; other site 395019001289 ATP binding site [chemical binding]; other site 395019001290 Q-loop/lid; other site 395019001291 ABC transporter signature motif; other site 395019001292 Walker B; other site 395019001293 D-loop; other site 395019001294 H-loop/switch region; other site 395019001295 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 395019001296 Permease; Region: Permease; pfam02405 395019001297 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 395019001298 mce related protein; Region: MCE; pfam02470 395019001299 VacJ like lipoprotein; Region: VacJ; cl01073 395019001300 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 395019001301 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 395019001302 anti sigma factor interaction site; other site 395019001303 regulatory phosphorylation site [posttranslational modification]; other site 395019001304 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 395019001305 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 395019001306 Walker A/P-loop; other site 395019001307 ATP binding site [chemical binding]; other site 395019001308 Q-loop/lid; other site 395019001309 ABC transporter signature motif; other site 395019001310 Walker B; other site 395019001311 D-loop; other site 395019001312 H-loop/switch region; other site 395019001313 ABC-2 type transporter; Region: ABC2_membrane; cl17235 395019001314 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395019001315 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 395019001316 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 395019001317 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 395019001318 hinge; other site 395019001319 active site 395019001320 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 395019001321 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 395019001322 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 395019001323 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 395019001324 NAD binding site [chemical binding]; other site 395019001325 dimerization interface [polypeptide binding]; other site 395019001326 product binding site; other site 395019001327 substrate binding site [chemical binding]; other site 395019001328 zinc binding site [ion binding]; other site 395019001329 catalytic residues [active] 395019001330 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 395019001331 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 395019001332 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019001333 homodimer interface [polypeptide binding]; other site 395019001334 catalytic residue [active] 395019001335 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 395019001336 putative active site pocket [active] 395019001337 4-fold oligomerization interface [polypeptide binding]; other site 395019001338 metal binding residues [ion binding]; metal-binding site 395019001339 3-fold/trimer interface [polypeptide binding]; other site 395019001340 MarC family integral membrane protein; Region: MarC; cl00919 395019001341 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 395019001342 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 395019001343 putative active site [active] 395019001344 oxyanion strand; other site 395019001345 catalytic triad [active] 395019001346 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 395019001347 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 395019001348 catalytic residues [active] 395019001349 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 395019001350 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 395019001351 substrate binding site [chemical binding]; other site 395019001352 glutamase interaction surface [polypeptide binding]; other site 395019001353 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 395019001354 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 395019001355 metal binding site [ion binding]; metal-binding site 395019001356 Predicted membrane protein [Function unknown]; Region: COG3671 395019001357 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 395019001358 nucleotide binding site/active site [active] 395019001359 HIT family signature motif; other site 395019001360 catalytic residue [active] 395019001361 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 395019001362 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 395019001363 sec-independent translocase; Provisional; Region: tatB; PRK01919 395019001364 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 395019001365 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395019001366 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 395019001367 protein binding site [polypeptide binding]; other site 395019001368 Uncharacterized conserved protein [Function unknown]; Region: COG0327 395019001369 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 395019001370 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 395019001371 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 395019001372 [2Fe-2S] cluster binding site [ion binding]; other site 395019001373 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 395019001374 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 395019001375 Qi binding site; other site 395019001376 intrachain domain interface; other site 395019001377 interchain domain interface [polypeptide binding]; other site 395019001378 heme bH binding site [chemical binding]; other site 395019001379 heme bL binding site [chemical binding]; other site 395019001380 Qo binding site; other site 395019001381 interchain domain interface [polypeptide binding]; other site 395019001382 intrachain domain interface; other site 395019001383 Qi binding site; other site 395019001384 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 395019001385 Qo binding site; other site 395019001386 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 395019001387 stringent starvation protein A; Provisional; Region: sspA; PRK09481 395019001388 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 395019001389 C-terminal domain interface [polypeptide binding]; other site 395019001390 putative GSH binding site (G-site) [chemical binding]; other site 395019001391 dimer interface [polypeptide binding]; other site 395019001392 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 395019001393 dimer interface [polypeptide binding]; other site 395019001394 N-terminal domain interface [polypeptide binding]; other site 395019001395 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 395019001396 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395019001397 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 395019001398 substrate binding pocket [chemical binding]; other site 395019001399 membrane-bound complex binding site; other site 395019001400 hinge residues; other site 395019001401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 395019001402 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 395019001403 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 395019001404 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 395019001405 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 395019001406 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 395019001407 RHS Repeat; Region: RHS_repeat; cl11982 395019001408 RHS Repeat; Region: RHS_repeat; cl11982 395019001409 RHS Repeat; Region: RHS_repeat; pfam05593 395019001410 RHS Repeat; Region: RHS_repeat; pfam05593 395019001411 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 395019001412 RHS Repeat; Region: RHS_repeat; pfam05593 395019001413 RHS Repeat; Region: RHS_repeat; pfam05593 395019001414 RHS Repeat; Region: RHS_repeat; pfam05593 395019001415 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 395019001416 RHS protein; Region: RHS; pfam03527 395019001417 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 395019001418 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 395019001419 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 395019001420 RHS Repeat; Region: RHS_repeat; cl11982 395019001421 RHS protein; Region: RHS; pfam03527 395019001422 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 395019001423 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019001424 MULE transposase domain; Region: MULE; pfam10551 395019001425 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 395019001426 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 395019001427 dimer interface [polypeptide binding]; other site 395019001428 PYR/PP interface [polypeptide binding]; other site 395019001429 TPP binding site [chemical binding]; other site 395019001430 substrate binding site [chemical binding]; other site 395019001431 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 395019001432 TPP-binding site; other site 395019001433 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 395019001434 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 395019001435 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 395019001436 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 395019001437 CutC family; Region: CutC; cl01218 395019001438 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 395019001439 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 395019001440 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 395019001441 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 395019001442 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 395019001443 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395019001444 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395019001445 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 395019001446 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 395019001447 carboxyltransferase (CT) interaction site; other site 395019001448 biotinylation site [posttranslational modification]; other site 395019001449 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 395019001450 putative active site [active] 395019001451 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019001452 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019001453 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 395019001454 putative substrate binding pocket [chemical binding]; other site 395019001455 dimerization interface [polypeptide binding]; other site 395019001456 biotin synthase; Provisional; Region: PRK15108 395019001457 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 395019001458 FeS/SAM binding site; other site 395019001459 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 395019001460 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 395019001461 AAA domain; Region: AAA_26; pfam13500 395019001462 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 395019001463 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 395019001464 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019001465 catalytic residue [active] 395019001466 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 395019001467 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 395019001468 inhibitor-cofactor binding pocket; inhibition site 395019001469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019001470 catalytic residue [active] 395019001471 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395019001472 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395019001473 hypothetical protein; Provisional; Region: PRK01842 395019001474 C factor cell-cell signaling protein; Provisional; Region: PRK09009 395019001475 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 395019001476 NADP binding site [chemical binding]; other site 395019001477 homodimer interface [polypeptide binding]; other site 395019001478 active site 395019001479 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 395019001480 active site clefts [active] 395019001481 zinc binding site [ion binding]; other site 395019001482 dimer interface [polypeptide binding]; other site 395019001483 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 395019001484 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 395019001485 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 395019001486 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395019001487 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 395019001488 peptide binding site [polypeptide binding]; other site 395019001489 short chain dehydrogenase; Provisional; Region: PRK07024 395019001490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019001491 NAD(P) binding site [chemical binding]; other site 395019001492 active site 395019001493 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 395019001494 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 395019001495 catalytic residues [active] 395019001496 hinge region; other site 395019001497 alpha helical domain; other site 395019001498 Sporulation related domain; Region: SPOR; pfam05036 395019001499 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 395019001500 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 395019001501 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 395019001502 active site 395019001503 HIGH motif; other site 395019001504 KMSK motif region; other site 395019001505 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 395019001506 tRNA binding surface [nucleotide binding]; other site 395019001507 anticodon binding site; other site 395019001508 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 395019001509 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 395019001510 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 395019001511 substrate binding pocket [chemical binding]; other site 395019001512 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 395019001513 B12 binding site [chemical binding]; other site 395019001514 cobalt ligand [ion binding]; other site 395019001515 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 395019001516 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 395019001517 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 395019001518 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 395019001519 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 395019001520 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395019001521 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019001522 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 395019001523 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395019001524 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395019001525 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 395019001526 substrate binding site [chemical binding]; other site 395019001527 oxyanion hole (OAH) forming residues; other site 395019001528 trimer interface [polypeptide binding]; other site 395019001529 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 395019001530 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 395019001531 active site 395019001532 nucleophile elbow; other site 395019001533 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 395019001534 dinuclear metal binding motif [ion binding]; other site 395019001535 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 395019001536 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 395019001537 active site 395019001538 HIGH motif; other site 395019001539 nucleotide binding site [chemical binding]; other site 395019001540 pantothenate kinase; Reviewed; Region: PRK13328 395019001541 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395019001542 Sel1-like repeats; Region: SEL1; smart00671 395019001543 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 395019001544 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 395019001545 active site 395019001546 metal binding site [ion binding]; metal-binding site 395019001547 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 395019001548 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 395019001549 Permease; Region: Permease; pfam02405 395019001550 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 395019001551 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 395019001552 Walker A/P-loop; other site 395019001553 ATP binding site [chemical binding]; other site 395019001554 Q-loop/lid; other site 395019001555 ABC transporter signature motif; other site 395019001556 Walker B; other site 395019001557 D-loop; other site 395019001558 H-loop/switch region; other site 395019001559 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 395019001560 mce related protein; Region: MCE; pfam02470 395019001561 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 395019001562 Protein of unknown function (DUF330); Region: DUF330; pfam03886 395019001563 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 395019001564 dimer interface [polypeptide binding]; other site 395019001565 [2Fe-2S] cluster binding site [ion binding]; other site 395019001566 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 395019001567 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 395019001568 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 395019001569 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 395019001570 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 395019001571 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 395019001572 homodimer interface [polypeptide binding]; other site 395019001573 substrate-cofactor binding pocket; other site 395019001574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019001575 catalytic residue [active] 395019001576 hypothetical protein; Provisional; Region: PRK02047 395019001577 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019001578 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019001579 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019001580 dimerization interface [polypeptide binding]; other site 395019001581 substrate binding pocket [chemical binding]; other site 395019001582 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 395019001583 lipoate-protein ligase B; Provisional; Region: PRK14343 395019001584 lipoyl synthase; Provisional; Region: PRK05481 395019001585 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 395019001586 FeS/SAM binding site; other site 395019001587 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 395019001588 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 395019001589 substrate binding pocket [chemical binding]; other site 395019001590 membrane-bound complex binding site; other site 395019001591 hinge residues; other site 395019001592 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 395019001593 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395019001594 Walker A/P-loop; other site 395019001595 ATP binding site [chemical binding]; other site 395019001596 Q-loop/lid; other site 395019001597 ABC transporter signature motif; other site 395019001598 Walker B; other site 395019001599 D-loop; other site 395019001600 H-loop/switch region; other site 395019001601 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395019001602 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 395019001603 dimer interface [polypeptide binding]; other site 395019001604 conserved gate region; other site 395019001605 putative PBP binding loops; other site 395019001606 ABC-ATPase subunit interface; other site 395019001607 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 395019001608 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395019001609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019001610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019001611 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 395019001612 putative effector binding pocket; other site 395019001613 dimerization interface [polypeptide binding]; other site 395019001614 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 395019001615 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 395019001616 substrate binding site [chemical binding]; other site 395019001617 oxyanion hole (OAH) forming residues; other site 395019001618 trimer interface [polypeptide binding]; other site 395019001619 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395019001620 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395019001621 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395019001622 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 395019001623 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395019001624 active site 395019001625 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 395019001626 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 395019001627 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 395019001628 active site 395019001629 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395019001630 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395019001631 Protein of unknown function, DUF485; Region: DUF485; pfam04341 395019001632 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 395019001633 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 395019001634 Na binding site [ion binding]; other site 395019001635 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 395019001636 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 395019001637 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 395019001638 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 395019001639 dimer interface [polypeptide binding]; other site 395019001640 phosphorylation site [posttranslational modification] 395019001641 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395019001642 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 395019001643 active site 395019001644 phosphorylation site [posttranslational modification] 395019001645 intermolecular recognition site; other site 395019001646 dimerization interface [polypeptide binding]; other site 395019001647 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 395019001648 Walker A motif; other site 395019001649 ATP binding site [chemical binding]; other site 395019001650 Walker B motif; other site 395019001651 arginine finger; other site 395019001652 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395019001653 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 395019001654 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019001655 catalytic residues [active] 395019001656 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 395019001657 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 395019001658 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 395019001659 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 395019001660 Membrane fusogenic activity; Region: BMFP; pfam04380 395019001661 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 395019001662 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395019001663 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 395019001664 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 395019001665 Glutamate-cysteine ligase; Region: GshA; pfam08886 395019001666 glutathione synthetase; Provisional; Region: PRK05246 395019001667 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 395019001668 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 395019001669 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 395019001670 active pocket/dimerization site; other site 395019001671 active site 395019001672 phosphorylation site [posttranslational modification] 395019001673 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 395019001674 dimerization domain swap beta strand [polypeptide binding]; other site 395019001675 regulatory protein interface [polypeptide binding]; other site 395019001676 active site 395019001677 regulatory phosphorylation site [posttranslational modification]; other site 395019001678 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 395019001679 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 395019001680 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 395019001681 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 395019001682 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 395019001683 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 395019001684 ATP binding site [chemical binding]; other site 395019001685 substrate interface [chemical binding]; other site 395019001686 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 395019001687 C-terminal peptidase (prc); Region: prc; TIGR00225 395019001688 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 395019001689 protein binding site [polypeptide binding]; other site 395019001690 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 395019001691 Catalytic dyad [active] 395019001692 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 395019001693 catalytic core [active] 395019001694 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 395019001695 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 395019001696 active site residue [active] 395019001697 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 395019001698 GSH binding site [chemical binding]; other site 395019001699 catalytic residues [active] 395019001700 preprotein translocase subunit SecB; Validated; Region: PRK05751 395019001701 SecA binding site; other site 395019001702 Preprotein binding site; other site 395019001703 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 395019001704 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 395019001705 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 395019001706 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 395019001707 putative ADP-ribose binding site [chemical binding]; other site 395019001708 putative active site [active] 395019001709 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 395019001710 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 395019001711 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 395019001712 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 395019001713 S-adenosylmethionine binding site [chemical binding]; other site 395019001714 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 395019001715 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 395019001716 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 395019001717 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 395019001718 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019001719 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 395019001720 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019001721 ligand binding site [chemical binding]; other site 395019001722 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 395019001723 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 395019001724 Subunit I/III interface [polypeptide binding]; other site 395019001725 D-pathway; other site 395019001726 Subunit I/VIIc interface [polypeptide binding]; other site 395019001727 Subunit I/IV interface [polypeptide binding]; other site 395019001728 Subunit I/II interface [polypeptide binding]; other site 395019001729 Low-spin heme (heme a) binding site [chemical binding]; other site 395019001730 Subunit I/VIIa interface [polypeptide binding]; other site 395019001731 Subunit I/VIa interface [polypeptide binding]; other site 395019001732 Dimer interface; other site 395019001733 Putative water exit pathway; other site 395019001734 Binuclear center (heme a3/CuB) [ion binding]; other site 395019001735 K-pathway; other site 395019001736 Subunit I/Vb interface [polypeptide binding]; other site 395019001737 Putative proton exit pathway; other site 395019001738 Subunit I/VIb interface; other site 395019001739 Subunit I/VIc interface [polypeptide binding]; other site 395019001740 Electron transfer pathway; other site 395019001741 Subunit I/VIIIb interface [polypeptide binding]; other site 395019001742 Subunit I/VIIb interface [polypeptide binding]; other site 395019001743 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 395019001744 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 395019001745 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 395019001746 Subunit III/VIIa interface [polypeptide binding]; other site 395019001747 Phospholipid binding site [chemical binding]; other site 395019001748 Subunit I/III interface [polypeptide binding]; other site 395019001749 Subunit III/VIb interface [polypeptide binding]; other site 395019001750 Subunit III/VIa interface; other site 395019001751 Subunit III/Vb interface [polypeptide binding]; other site 395019001752 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 395019001753 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 395019001754 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 395019001755 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 395019001756 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 395019001757 UbiA prenyltransferase family; Region: UbiA; pfam01040 395019001758 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 395019001759 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019001760 Cu(I) binding site [ion binding]; other site 395019001761 YCII-related domain; Region: YCII; pfam03795 395019001762 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 395019001763 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 395019001764 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019001765 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395019001766 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019001767 dimer interface [polypeptide binding]; other site 395019001768 putative CheW interface [polypeptide binding]; other site 395019001769 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 395019001770 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 395019001771 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 395019001772 zinc binding site [ion binding]; other site 395019001773 putative ligand binding site [chemical binding]; other site 395019001774 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019001775 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 395019001776 TM-ABC transporter signature motif; other site 395019001777 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 395019001778 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019001779 Walker A/P-loop; other site 395019001780 ATP binding site [chemical binding]; other site 395019001781 Q-loop/lid; other site 395019001782 ABC transporter signature motif; other site 395019001783 Walker B; other site 395019001784 D-loop; other site 395019001785 H-loop/switch region; other site 395019001786 Uncharacterized conserved protein [Function unknown]; Region: COG4544 395019001787 DNA Polymerase Y-family; Region: PolY_like; cd03468 395019001788 active site 395019001789 DNA binding site [nucleotide binding] 395019001790 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 395019001791 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 395019001792 putative active site [active] 395019001793 putative PHP Thumb interface [polypeptide binding]; other site 395019001794 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 395019001795 generic binding surface II; other site 395019001796 generic binding surface I; other site 395019001797 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 395019001798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019001799 DNA-binding site [nucleotide binding]; DNA binding site 395019001800 UTRA domain; Region: UTRA; pfam07702 395019001801 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 395019001802 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 395019001803 active site 395019001804 dimer interface [polypeptide binding]; other site 395019001805 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 395019001806 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 395019001807 dimer interface [polypeptide binding]; other site 395019001808 active site 395019001809 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 395019001810 dimer interface [polypeptide binding]; other site 395019001811 active site 395019001812 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 395019001813 HPr interaction site; other site 395019001814 glycerol kinase (GK) interaction site [polypeptide binding]; other site 395019001815 active site 395019001816 phosphorylation site [posttranslational modification] 395019001817 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 395019001818 dimerization domain swap beta strand [polypeptide binding]; other site 395019001819 regulatory protein interface [polypeptide binding]; other site 395019001820 active site 395019001821 regulatory phosphorylation site [posttranslational modification]; other site 395019001822 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 395019001823 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 395019001824 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 395019001825 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 395019001826 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 395019001827 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 395019001828 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 395019001829 active site turn [active] 395019001830 phosphorylation site [posttranslational modification] 395019001831 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 395019001832 active site turn [active] 395019001833 phosphorylation site [posttranslational modification] 395019001834 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 395019001835 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 395019001836 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 395019001837 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 395019001838 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 395019001839 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395019001840 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019001841 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 395019001842 DNA binding residues [nucleotide binding] 395019001843 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 395019001844 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 395019001845 SnoaL-like domain; Region: SnoaL_3; pfam13474 395019001846 2-isopropylmalate synthase; Validated; Region: PRK03739 395019001847 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 395019001848 active site 395019001849 catalytic residues [active] 395019001850 metal binding site [ion binding]; metal-binding site 395019001851 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 395019001852 glycosyl transferase family protein; Provisional; Region: PRK08136 395019001853 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 395019001854 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 395019001855 maleylacetoacetate isomerase; Region: maiA; TIGR01262 395019001856 C-terminal domain interface [polypeptide binding]; other site 395019001857 GSH binding site (G-site) [chemical binding]; other site 395019001858 putative dimer interface [polypeptide binding]; other site 395019001859 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 395019001860 dimer interface [polypeptide binding]; other site 395019001861 N-terminal domain interface [polypeptide binding]; other site 395019001862 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 395019001863 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 395019001864 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 395019001865 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 395019001866 P loop; other site 395019001867 GTP binding site [chemical binding]; other site 395019001868 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 395019001869 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 395019001870 S-adenosylmethionine binding site [chemical binding]; other site 395019001871 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 395019001872 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 395019001873 active site 395019001874 (T/H)XGH motif; other site 395019001875 integrase; Provisional; Region: int; PHA02601 395019001876 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 395019001877 active site 395019001878 DNA binding site [nucleotide binding] 395019001879 Int/Topo IB signature motif; other site 395019001880 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 395019001881 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 395019001882 active site 395019001883 catalytic residues [active] 395019001884 DNA binding site [nucleotide binding] 395019001885 Int/Topo IB signature motif; other site 395019001886 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 395019001887 TPR repeat; Region: TPR_11; pfam13414 395019001888 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 395019001889 TPR motif; other site 395019001890 binding surface 395019001891 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 395019001892 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 395019001893 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395019001894 Walker A motif; other site 395019001895 ATP binding site [chemical binding]; other site 395019001896 Walker B motif; other site 395019001897 arginine finger; other site 395019001898 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 395019001899 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 395019001900 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 395019001901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019001902 homodimer interface [polypeptide binding]; other site 395019001903 catalytic residue [active] 395019001904 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 395019001905 putative active site [active] 395019001906 catalytic residue [active] 395019001907 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 395019001908 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 395019001909 5S rRNA interface [nucleotide binding]; other site 395019001910 CTC domain interface [polypeptide binding]; other site 395019001911 L16 interface [polypeptide binding]; other site 395019001912 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 395019001913 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 395019001914 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395019001915 active site 395019001916 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 395019001917 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 395019001918 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 395019001919 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 395019001920 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 395019001921 TPR motif; other site 395019001922 binding surface 395019001923 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 395019001924 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 395019001925 binding surface 395019001926 TPR motif; other site 395019001927 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 395019001928 binding surface 395019001929 TPR motif; other site 395019001930 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 395019001931 binding surface 395019001932 TPR motif; other site 395019001933 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 395019001934 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 395019001935 DNA binding site [nucleotide binding] 395019001936 catalytic residue [active] 395019001937 H2TH interface [polypeptide binding]; other site 395019001938 putative catalytic residues [active] 395019001939 turnover-facilitating residue; other site 395019001940 intercalation triad [nucleotide binding]; other site 395019001941 8OG recognition residue [nucleotide binding]; other site 395019001942 putative reading head residues; other site 395019001943 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 395019001944 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 395019001945 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 395019001946 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395019001947 minor groove reading motif; other site 395019001948 helix-hairpin-helix signature motif; other site 395019001949 substrate binding pocket [chemical binding]; other site 395019001950 active site 395019001951 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 395019001952 DNA binding and oxoG recognition site [nucleotide binding] 395019001953 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 395019001954 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 395019001955 AAA domain; Region: AAA_18; pfam13238 395019001956 HPr kinase/phosphorylase; Provisional; Region: PRK05428 395019001957 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 395019001958 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 395019001959 Hpr binding site; other site 395019001960 active site 395019001961 homohexamer subunit interaction site [polypeptide binding]; other site 395019001962 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 395019001963 active site 395019001964 phosphorylation site [posttranslational modification] 395019001965 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 395019001966 30S subunit binding site; other site 395019001967 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 395019001968 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 395019001969 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 395019001970 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 395019001971 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 395019001972 Walker A/P-loop; other site 395019001973 ATP binding site [chemical binding]; other site 395019001974 Q-loop/lid; other site 395019001975 ABC transporter signature motif; other site 395019001976 Walker B; other site 395019001977 D-loop; other site 395019001978 H-loop/switch region; other site 395019001979 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 395019001980 OstA-like protein; Region: OstA; pfam03968 395019001981 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 395019001982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 395019001983 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 395019001984 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 395019001985 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 395019001986 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 395019001987 putative active site [active] 395019001988 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 395019001989 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 395019001990 TrkA-N domain; Region: TrkA_N; pfam02254 395019001991 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395019001992 active site 395019001993 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395019001994 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 395019001995 nudix motif; other site 395019001996 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 395019001997 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 395019001998 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 395019001999 putative active site [active] 395019002000 putative substrate binding site [chemical binding]; other site 395019002001 putative cosubstrate binding site; other site 395019002002 catalytic site [active] 395019002003 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395019002004 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 395019002005 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 395019002006 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 395019002007 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 395019002008 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 395019002009 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019002010 putative substrate translocation pore; other site 395019002011 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 395019002012 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 395019002013 dimer interface [polypeptide binding]; other site 395019002014 ssDNA binding site [nucleotide binding]; other site 395019002015 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395019002016 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 395019002017 active site 395019002018 DNA binding site [nucleotide binding] 395019002019 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395019002020 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 395019002021 P-loop; other site 395019002022 Magnesium ion binding site [ion binding]; other site 395019002023 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 395019002024 Magnesium ion binding site [ion binding]; other site 395019002025 Phasin protein; Region: Phasin_2; pfam09361 395019002026 putative acyltransferase; Provisional; Region: PRK05790 395019002027 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 395019002028 dimer interface [polypeptide binding]; other site 395019002029 active site 395019002030 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 395019002031 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 395019002032 NAD(P) binding site [chemical binding]; other site 395019002033 homotetramer interface [polypeptide binding]; other site 395019002034 homodimer interface [polypeptide binding]; other site 395019002035 active site 395019002036 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 395019002037 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 395019002038 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 395019002039 putative active site [active] 395019002040 catalytic site [active] 395019002041 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 395019002042 putative active site [active] 395019002043 catalytic site [active] 395019002044 aldolase II superfamily protein; Provisional; Region: PRK07044 395019002045 intersubunit interface [polypeptide binding]; other site 395019002046 active site 395019002047 Zn2+ binding site [ion binding]; other site 395019002048 CHRD domain; Region: CHRD; pfam07452 395019002049 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395019002050 EcsC protein family; Region: EcsC; pfam12787 395019002051 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 395019002052 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019002053 putative substrate translocation pore; other site 395019002054 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 395019002055 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395019002056 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 395019002057 intracellular protease, PfpI family; Region: PfpI; TIGR01382 395019002058 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 395019002059 conserved cys residue [active] 395019002060 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 395019002061 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 395019002062 dimer interface [polypeptide binding]; other site 395019002063 active site 395019002064 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395019002065 substrate binding site [chemical binding]; other site 395019002066 catalytic residue [active] 395019002067 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395019002068 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395019002069 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 395019002070 putative active site [active] 395019002071 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 395019002072 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 395019002073 active site 395019002074 putative substrate binding pocket [chemical binding]; other site 395019002075 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 395019002076 homotrimer interaction site [polypeptide binding]; other site 395019002077 putative active site [active] 395019002078 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 395019002079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 395019002080 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 395019002081 threonine dehydratase; Reviewed; Region: PRK09224 395019002082 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 395019002083 tetramer interface [polypeptide binding]; other site 395019002084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019002085 catalytic residue [active] 395019002086 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 395019002087 putative Ile/Val binding site [chemical binding]; other site 395019002088 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 395019002089 putative Ile/Val binding site [chemical binding]; other site 395019002090 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 395019002091 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395019002092 FAD binding domain; Region: FAD_binding_4; pfam01565 395019002093 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395019002094 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 395019002095 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 395019002096 Cysteine-rich domain; Region: CCG; pfam02754 395019002097 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 395019002098 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 395019002099 nucleotide binding site/active site [active] 395019002100 HIT family signature motif; other site 395019002101 catalytic residue [active] 395019002102 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 395019002103 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 395019002104 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 395019002105 S-adenosylmethionine binding site [chemical binding]; other site 395019002106 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 395019002107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 395019002108 SCP-2 sterol transfer family; Region: SCP2; pfam02036 395019002109 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 395019002110 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 395019002111 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 395019002112 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 395019002113 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 395019002114 Uncharacterized conserved protein [Function unknown]; Region: COG2928 395019002115 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 395019002116 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 395019002117 dimer interface [polypeptide binding]; other site 395019002118 anticodon binding site; other site 395019002119 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 395019002120 homodimer interface [polypeptide binding]; other site 395019002121 motif 1; other site 395019002122 active site 395019002123 motif 2; other site 395019002124 GAD domain; Region: GAD; pfam02938 395019002125 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 395019002126 motif 3; other site 395019002127 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 395019002128 nudix motif; other site 395019002129 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 395019002130 PLD-like domain; Region: PLDc_2; pfam13091 395019002131 putative active site [active] 395019002132 catalytic site [active] 395019002133 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 395019002134 PLD-like domain; Region: PLDc_2; pfam13091 395019002135 putative active site [active] 395019002136 catalytic site [active] 395019002137 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019002138 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019002139 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 395019002140 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 395019002141 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 395019002142 FAD binding site [chemical binding]; other site 395019002143 substrate binding site [chemical binding]; other site 395019002144 catalytic residues [active] 395019002145 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 395019002146 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 395019002147 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395019002148 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395019002149 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 395019002150 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 395019002151 substrate binding site [chemical binding]; other site 395019002152 oxyanion hole (OAH) forming residues; other site 395019002153 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 395019002154 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 395019002155 dimer interface [polypeptide binding]; other site 395019002156 active site 395019002157 enoyl-CoA hydratase; Provisional; Region: PRK06688 395019002158 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 395019002159 substrate binding site [chemical binding]; other site 395019002160 oxyanion hole (OAH) forming residues; other site 395019002161 trimer interface [polypeptide binding]; other site 395019002162 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 395019002163 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 395019002164 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 395019002165 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 395019002166 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 395019002167 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395019002168 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 395019002169 Walker A/P-loop; other site 395019002170 ATP binding site [chemical binding]; other site 395019002171 Q-loop/lid; other site 395019002172 ABC transporter signature motif; other site 395019002173 Walker B; other site 395019002174 D-loop; other site 395019002175 H-loop/switch region; other site 395019002176 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 395019002177 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 395019002178 Substrate binding site; other site 395019002179 metal-binding site 395019002180 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 395019002181 Phosphotransferase enzyme family; Region: APH; pfam01636 395019002182 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 395019002183 Organic solvent tolerance protein; Region: OstA_C; pfam04453 395019002184 SurA N-terminal domain; Region: SurA_N; pfam09312 395019002185 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 395019002186 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 395019002187 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 395019002188 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 395019002189 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 395019002190 EamA-like transporter family; Region: EamA; pfam00892 395019002191 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019002192 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 395019002193 dimer interface [polypeptide binding]; other site 395019002194 active site 395019002195 metal binding site [ion binding]; metal-binding site 395019002196 glutathione binding site [chemical binding]; other site 395019002197 Protein of unknown function DUF45; Region: DUF45; pfam01863 395019002198 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 395019002199 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395019002200 putative acyl-acceptor binding pocket; other site 395019002201 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 395019002202 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 395019002203 active site 395019002204 motif I; other site 395019002205 motif II; other site 395019002206 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 395019002207 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 395019002208 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 395019002209 dimer interface [polypeptide binding]; other site 395019002210 motif 1; other site 395019002211 active site 395019002212 motif 2; other site 395019002213 motif 3; other site 395019002214 TPR repeat; Region: TPR_11; pfam13414 395019002215 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 395019002216 binding surface 395019002217 TPR motif; other site 395019002218 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 395019002219 binding surface 395019002220 TPR motif; other site 395019002221 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 395019002222 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 395019002223 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 395019002224 putative active site [active] 395019002225 catalytic triad [active] 395019002226 putative dimer interface [polypeptide binding]; other site 395019002227 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 395019002228 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 395019002229 Transporter associated domain; Region: CorC_HlyC; smart01091 395019002230 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 395019002231 putative active site pocket [active] 395019002232 dimerization interface [polypeptide binding]; other site 395019002233 putative catalytic residue [active] 395019002234 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 395019002235 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 395019002236 PhoH-like protein; Region: PhoH; pfam02562 395019002237 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 395019002238 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395019002239 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 395019002240 FeS/SAM binding site; other site 395019002241 TRAM domain; Region: TRAM; pfam01938 395019002242 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019002243 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019002244 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 395019002245 putative effector binding pocket; other site 395019002246 dimerization interface [polypeptide binding]; other site 395019002247 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019002248 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 395019002249 putative substrate translocation pore; other site 395019002250 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019002251 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 395019002252 non-specific DNA binding site [nucleotide binding]; other site 395019002253 salt bridge; other site 395019002254 sequence-specific DNA binding site [nucleotide binding]; other site 395019002255 Cupin domain; Region: Cupin_2; pfam07883 395019002256 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 395019002257 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 395019002258 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395019002259 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 395019002260 motif II; other site 395019002261 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395019002262 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 395019002263 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 395019002264 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 395019002265 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395019002266 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 395019002267 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395019002268 putative ligand binding site [chemical binding]; other site 395019002269 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 395019002270 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 395019002271 putative di-iron ligands [ion binding]; other site 395019002272 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 395019002273 [2Fe-2S] cluster binding site [ion binding]; other site 395019002274 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 395019002275 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019002276 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 395019002277 amphipathic channel; other site 395019002278 Asn-Pro-Ala signature motifs; other site 395019002279 glycerol kinase; Provisional; Region: glpK; PRK00047 395019002280 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 395019002281 N- and C-terminal domain interface [polypeptide binding]; other site 395019002282 active site 395019002283 MgATP binding site [chemical binding]; other site 395019002284 catalytic site [active] 395019002285 metal binding site [ion binding]; metal-binding site 395019002286 glycerol binding site [chemical binding]; other site 395019002287 homotetramer interface [polypeptide binding]; other site 395019002288 homodimer interface [polypeptide binding]; other site 395019002289 FBP binding site [chemical binding]; other site 395019002290 protein IIAGlc interface [polypeptide binding]; other site 395019002291 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 395019002292 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395019002293 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 395019002294 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 395019002295 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 395019002296 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395019002297 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 395019002298 dinuclear metal binding motif [ion binding]; other site 395019002299 helicase 45; Provisional; Region: PTZ00424 395019002300 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 395019002301 ATP binding site [chemical binding]; other site 395019002302 Mg++ binding site [ion binding]; other site 395019002303 motif III; other site 395019002304 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 395019002305 nucleotide binding region [chemical binding]; other site 395019002306 ATP-binding site [chemical binding]; other site 395019002307 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019002308 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019002309 Cytochrome c; Region: Cytochrom_C; pfam00034 395019002310 Cytochrome c; Region: Cytochrom_C; cl11414 395019002311 Cytochrome c; Region: Cytochrom_C; cl11414 395019002312 galactonate dehydratase; Provisional; Region: PRK14017 395019002313 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 395019002314 putative active site pocket [active] 395019002315 putative metal binding site [ion binding]; other site 395019002316 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395019002317 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019002318 DNA-binding site [nucleotide binding]; DNA binding site 395019002319 FCD domain; Region: FCD; cl11656 395019002320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 395019002321 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 395019002322 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 395019002323 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019002324 putative substrate translocation pore; other site 395019002325 Uncharacterized conserved protein [Function unknown]; Region: COG3791 395019002326 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 395019002327 Transglycosylase; Region: Transgly; cl17702 395019002328 Cupin domain; Region: Cupin_2; cl17218 395019002329 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 395019002330 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 395019002331 conserved cys residue [active] 395019002332 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395019002333 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395019002334 conserved cys residue [active] 395019002335 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019002336 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019002337 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019002338 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 395019002339 putative effector binding pocket; other site 395019002340 putative dimerization interface [polypeptide binding]; other site 395019002341 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 395019002342 VRR-NUC domain; Region: VRR_NUC; pfam08774 395019002343 PAAR motif; Region: PAAR_motif; pfam05488 395019002344 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 395019002345 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 395019002346 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 395019002347 Int/Topo IB signature motif; other site 395019002348 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 395019002349 putative substrate translocation pore; other site 395019002350 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 395019002351 HAMP domain; Region: HAMP; pfam00672 395019002352 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 395019002353 dimer interface [polypeptide binding]; other site 395019002354 phosphorylation site [posttranslational modification] 395019002355 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 395019002356 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 395019002357 ATP binding site [chemical binding]; other site 395019002358 Mg2+ binding site [ion binding]; other site 395019002359 G-X-G motif; other site 395019002360 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395019002361 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 395019002362 active site 395019002363 phosphorylation site [posttranslational modification] 395019002364 intermolecular recognition site; other site 395019002365 dimerization interface [polypeptide binding]; other site 395019002366 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 395019002367 DNA binding site [nucleotide binding] 395019002368 recombinase A; Provisional; Region: recA; PRK09354 395019002369 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 395019002370 hexamer interface [polypeptide binding]; other site 395019002371 Walker A motif; other site 395019002372 ATP binding site [chemical binding]; other site 395019002373 Walker B motif; other site 395019002374 recombination regulator RecX; Provisional; Region: recX; PRK14136 395019002375 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 395019002376 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 395019002377 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 395019002378 CoA-ligase; Region: Ligase_CoA; pfam00549 395019002379 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 395019002380 CoA binding domain; Region: CoA_binding; smart00881 395019002381 CoA-ligase; Region: Ligase_CoA; pfam00549 395019002382 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 395019002383 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 395019002384 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 395019002385 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 395019002386 O-Antigen ligase; Region: Wzy_C; pfam04932 395019002387 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 395019002388 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 395019002389 trimer interface [polypeptide binding]; other site 395019002390 dimer interface [polypeptide binding]; other site 395019002391 putative active site [active] 395019002392 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 395019002393 Peptidase family M48; Region: Peptidase_M48; pfam01435 395019002394 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 395019002395 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 395019002396 SnoaL-like domain; Region: SnoaL_3; pfam13474 395019002397 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 395019002398 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395019002399 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 395019002400 putative active site [active] 395019002401 Zinc-finger domain; Region: zf-CHCC; cl01821 395019002402 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 395019002403 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 395019002404 homodimer interface [polypeptide binding]; other site 395019002405 substrate-cofactor binding pocket; other site 395019002406 catalytic residue [active] 395019002407 AzlC protein; Region: AzlC; cl00570 395019002408 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 395019002409 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 395019002410 Phosphoglycerate kinase; Region: PGK; pfam00162 395019002411 substrate binding site [chemical binding]; other site 395019002412 hinge regions; other site 395019002413 ADP binding site [chemical binding]; other site 395019002414 catalytic site [active] 395019002415 pyruvate kinase; Provisional; Region: PRK05826 395019002416 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 395019002417 domain interfaces; other site 395019002418 active site 395019002419 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 395019002420 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 395019002421 intersubunit interface [polypeptide binding]; other site 395019002422 active site 395019002423 zinc binding site [ion binding]; other site 395019002424 Na+ binding site [ion binding]; other site 395019002425 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 395019002426 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 395019002427 ATP binding site [chemical binding]; other site 395019002428 active site 395019002429 substrate binding site [chemical binding]; other site 395019002430 AIR carboxylase; Region: AIRC; pfam00731 395019002431 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 395019002432 ATP-grasp domain; Region: ATP-grasp; pfam02222 395019002433 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 395019002434 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 395019002435 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 395019002436 active site 395019002437 catalytic triad [active] 395019002438 oxyanion hole [active] 395019002439 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 395019002440 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 395019002441 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 395019002442 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 395019002443 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 395019002444 active site 395019002445 phosphorylation site [posttranslational modification] 395019002446 intermolecular recognition site; other site 395019002447 dimerization interface [polypeptide binding]; other site 395019002448 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 395019002449 DNA binding site [nucleotide binding] 395019002450 sensor protein QseC; Provisional; Region: PRK10337 395019002451 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 395019002452 ATP binding site [chemical binding]; other site 395019002453 Mg2+ binding site [ion binding]; other site 395019002454 G-X-G motif; other site 395019002455 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395019002456 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395019002457 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 395019002458 protein binding site [polypeptide binding]; other site 395019002459 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 395019002460 protein binding site [polypeptide binding]; other site 395019002461 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 395019002462 Domain of unknown function (DUF427); Region: DUF427; pfam04248 395019002463 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395019002464 hydrophobic ligand binding site; other site 395019002465 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 395019002466 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395019002467 conserved cys residue [active] 395019002468 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019002469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019002470 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 395019002471 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019002472 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 395019002473 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 395019002474 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019002475 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019002476 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 395019002477 Protein export membrane protein; Region: SecD_SecF; cl14618 395019002478 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395019002479 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019002480 xanthine permease; Region: pbuX; TIGR03173 395019002481 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 395019002482 nucleotide binding site [chemical binding]; other site 395019002483 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 395019002484 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 395019002485 substrate binding site [chemical binding]; other site 395019002486 catalytic Zn binding site [ion binding]; other site 395019002487 NAD binding site [chemical binding]; other site 395019002488 structural Zn binding site [ion binding]; other site 395019002489 dimer interface [polypeptide binding]; other site 395019002490 S-formylglutathione hydrolase; Region: PLN02442 395019002491 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 395019002492 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 395019002493 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 395019002494 ABC-ATPase subunit interface; other site 395019002495 dimer interface [polypeptide binding]; other site 395019002496 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395019002497 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 395019002498 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 395019002499 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 395019002500 metal binding site [ion binding]; metal-binding site 395019002501 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395019002502 metal binding site 2 [ion binding]; metal-binding site 395019002503 putative DNA binding helix; other site 395019002504 metal binding site 1 [ion binding]; metal-binding site 395019002505 dimer interface [polypeptide binding]; other site 395019002506 structural Zn2+ binding site [ion binding]; other site 395019002507 sorbitol dehydrogenase; Provisional; Region: PRK07067 395019002508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019002509 NAD(P) binding site [chemical binding]; other site 395019002510 active site 395019002511 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 395019002512 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395019002513 substrate binding site [chemical binding]; other site 395019002514 ATP binding site [chemical binding]; other site 395019002515 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 395019002516 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 395019002517 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395019002518 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 395019002519 dimer interface [polypeptide binding]; other site 395019002520 conserved gate region; other site 395019002521 putative PBP binding loops; other site 395019002522 ABC-ATPase subunit interface; other site 395019002523 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395019002524 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 395019002525 dimer interface [polypeptide binding]; other site 395019002526 conserved gate region; other site 395019002527 putative PBP binding loops; other site 395019002528 ABC-ATPase subunit interface; other site 395019002529 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 395019002530 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 395019002531 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 395019002532 Walker A/P-loop; other site 395019002533 ATP binding site [chemical binding]; other site 395019002534 Q-loop/lid; other site 395019002535 ABC transporter signature motif; other site 395019002536 Walker B; other site 395019002537 D-loop; other site 395019002538 H-loop/switch region; other site 395019002539 TOBE domain; Region: TOBE; pfam03459 395019002540 TOBE domain; Region: TOBE_2; pfam08402 395019002541 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019002542 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019002543 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 395019002544 putative effector binding pocket; other site 395019002545 putative dimerization interface [polypeptide binding]; other site 395019002546 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395019002547 Beta-lactamase; Region: Beta-lactamase; pfam00144 395019002548 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019002549 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 395019002550 putative substrate translocation pore; other site 395019002551 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 395019002552 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 395019002553 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 395019002554 N- and C-terminal domain interface [polypeptide binding]; other site 395019002555 D-xylulose kinase; Region: XylB; TIGR01312 395019002556 active site 395019002557 MgATP binding site [chemical binding]; other site 395019002558 catalytic site [active] 395019002559 metal binding site [ion binding]; metal-binding site 395019002560 xylulose binding site [chemical binding]; other site 395019002561 homodimer interface [polypeptide binding]; other site 395019002562 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 395019002563 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 395019002564 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 395019002565 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019002566 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019002567 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 395019002568 putative dimerization interface [polypeptide binding]; other site 395019002569 benzoylformate decarboxylase; Reviewed; Region: PRK07092 395019002570 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395019002571 PYR/PP interface [polypeptide binding]; other site 395019002572 dimer interface [polypeptide binding]; other site 395019002573 TPP binding site [chemical binding]; other site 395019002574 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395019002575 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 395019002576 TPP-binding site [chemical binding]; other site 395019002577 dimer interface [polypeptide binding]; other site 395019002578 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 395019002579 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019002580 NAD(P) binding site [chemical binding]; other site 395019002581 catalytic residues [active] 395019002582 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 395019002583 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 395019002584 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 395019002585 benzoate transport; Region: 2A0115; TIGR00895 395019002586 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 395019002587 putative substrate translocation pore; other site 395019002588 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 395019002589 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 395019002590 kynureninase; Region: kynureninase; TIGR01814 395019002591 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 395019002592 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019002593 catalytic residue [active] 395019002594 Putative cyclase; Region: Cyclase; cl00814 395019002595 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019002596 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 395019002597 putative DNA binding site [nucleotide binding]; other site 395019002598 putative Zn2+ binding site [ion binding]; other site 395019002599 AsnC family; Region: AsnC_trans_reg; pfam01037 395019002600 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 395019002601 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 395019002602 methionine sulfoxide reductase A; Provisional; Region: PRK14054 395019002603 Protein of unknown function DUF72; Region: DUF72; pfam01904 395019002604 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 395019002605 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 395019002606 S-adenosylmethionine binding site [chemical binding]; other site 395019002607 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 395019002608 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 395019002609 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 395019002610 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 395019002611 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 395019002612 putative ATP binding site [chemical binding]; other site 395019002613 putative substrate interface [chemical binding]; other site 395019002614 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 395019002615 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 395019002616 catalytic residues [active] 395019002617 Pirin-related protein [General function prediction only]; Region: COG1741 395019002618 Pirin; Region: Pirin; pfam02678 395019002619 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 395019002620 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 395019002621 EamA-like transporter family; Region: EamA; pfam00892 395019002622 EamA-like transporter family; Region: EamA; pfam00892 395019002623 AMIN domain; Region: AMIN; pfam11741 395019002624 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 395019002625 active site 395019002626 metal binding site [ion binding]; metal-binding site 395019002627 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 395019002628 epoxyqueuosine reductase; Region: TIGR00276 395019002629 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 395019002630 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 395019002631 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 395019002632 DNA binding site [nucleotide binding] 395019002633 active site 395019002634 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 395019002635 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 395019002636 active site 395019002637 Int/Topo IB signature motif; other site 395019002638 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 395019002639 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395019002640 acyl-activating enzyme (AAE) consensus motif; other site 395019002641 AMP binding site [chemical binding]; other site 395019002642 active site 395019002643 CoA binding site [chemical binding]; other site 395019002644 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 395019002645 putative deacylase active site [active] 395019002646 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 395019002647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 395019002648 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 395019002649 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 395019002650 FAD binding domain; Region: FAD_binding_4; pfam01565 395019002651 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 395019002652 ornithine carbamoyltransferase; Provisional; Region: PRK00779 395019002653 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395019002654 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 395019002655 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 395019002656 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 395019002657 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 395019002658 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 395019002659 Uncharacterized conserved protein [Function unknown]; Region: COG2912 395019002660 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 395019002661 adenylate kinase; Reviewed; Region: adk; PRK00279 395019002662 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 395019002663 AMP-binding site [chemical binding]; other site 395019002664 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 395019002665 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 395019002666 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 395019002667 Ligand binding site; other site 395019002668 oligomer interface; other site 395019002669 Uncharacterized conserved protein [Function unknown]; Region: COG2835 395019002670 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 395019002671 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 395019002672 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 395019002673 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 395019002674 generic binding surface II; other site 395019002675 generic binding surface I; other site 395019002676 superoxide dismutase; Provisional; Region: PRK10543 395019002677 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 395019002678 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 395019002679 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 395019002680 Chromate transporter; Region: Chromate_transp; pfam02417 395019002681 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 395019002682 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 395019002683 ligand binding site [chemical binding]; other site 395019002684 flexible hinge region; other site 395019002685 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 395019002686 putative switch regulator; other site 395019002687 non-specific DNA interactions [nucleotide binding]; other site 395019002688 DNA binding site [nucleotide binding] 395019002689 sequence specific DNA binding site [nucleotide binding]; other site 395019002690 putative cAMP binding site [chemical binding]; other site 395019002691 Protein of unknown function (DUF962); Region: DUF962; cl01879 395019002692 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 395019002693 S-adenosylmethionine binding site [chemical binding]; other site 395019002694 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 395019002695 putative transporter; Provisional; Region: PRK10504 395019002696 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 395019002697 putative substrate translocation pore; other site 395019002698 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 395019002699 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 395019002700 MerR family regulatory protein; Region: MerR; pfam00376 395019002701 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 395019002702 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 395019002703 dimer interface [polypeptide binding]; other site 395019002704 active site 395019002705 oxalacetate/citrate binding site [chemical binding]; other site 395019002706 citrylCoA binding site [chemical binding]; other site 395019002707 coenzyme A binding site [chemical binding]; other site 395019002708 catalytic triad [active] 395019002709 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395019002710 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395019002711 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 395019002712 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019002713 DNA-binding site [nucleotide binding]; DNA binding site 395019002714 UTRA domain; Region: UTRA; pfam07702 395019002715 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 395019002716 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395019002717 active site 395019002718 catalytic tetrad [active] 395019002719 High-affinity nickel-transport protein; Region: NicO; cl00964 395019002720 elongation factor G; Reviewed; Region: PRK00007 395019002721 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 395019002722 G1 box; other site 395019002723 putative GEF interaction site [polypeptide binding]; other site 395019002724 GTP/Mg2+ binding site [chemical binding]; other site 395019002725 Switch I region; other site 395019002726 G2 box; other site 395019002727 G3 box; other site 395019002728 Switch II region; other site 395019002729 G4 box; other site 395019002730 G5 box; other site 395019002731 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 395019002732 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 395019002733 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 395019002734 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 395019002735 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 395019002736 pseudouridine synthase; Region: TIGR00093 395019002737 active site 395019002738 isocitrate dehydrogenase; Validated; Region: PRK07362 395019002739 isocitrate dehydrogenase; Reviewed; Region: PRK07006 395019002740 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 395019002741 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 395019002742 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 395019002743 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 395019002744 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 395019002745 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 395019002746 trimer interface [polypeptide binding]; other site 395019002747 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 395019002748 trimer interface [polypeptide binding]; other site 395019002749 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 395019002750 trimer interface [polypeptide binding]; other site 395019002751 YadA-like C-terminal region; Region: YadA; pfam03895 395019002752 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 395019002753 DNA-binding site [nucleotide binding]; DNA binding site 395019002754 RNA-binding motif; other site 395019002755 Uncharacterized conserved protein [Function unknown]; Region: COG2127 395019002756 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 395019002757 Clp amino terminal domain; Region: Clp_N; pfam02861 395019002758 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 395019002759 Walker A motif; other site 395019002760 ATP binding site [chemical binding]; other site 395019002761 Walker B motif; other site 395019002762 arginine finger; other site 395019002763 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 395019002764 Walker A motif; other site 395019002765 ATP binding site [chemical binding]; other site 395019002766 Walker B motif; other site 395019002767 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 395019002768 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 395019002769 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 395019002770 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 395019002771 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 395019002772 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 395019002773 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 395019002774 trimer interface [polypeptide binding]; other site 395019002775 active site 395019002776 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 395019002777 Flavoprotein; Region: Flavoprotein; pfam02441 395019002778 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 395019002779 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 395019002780 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 395019002781 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395019002782 active site 395019002783 HIGH motif; other site 395019002784 nucleotide binding site [chemical binding]; other site 395019002785 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 395019002786 active site 395019002787 KMSKS motif; other site 395019002788 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 395019002789 tRNA binding surface [nucleotide binding]; other site 395019002790 anticodon binding site; other site 395019002791 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 395019002792 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 395019002793 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 395019002794 active site 395019002795 Riboflavin kinase; Region: Flavokinase; smart00904 395019002796 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 395019002797 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 395019002798 active site 395019002799 substrate binding site [chemical binding]; other site 395019002800 cosubstrate binding site; other site 395019002801 catalytic site [active] 395019002802 16S rRNA methyltransferase B; Provisional; Region: PRK14901 395019002803 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 395019002804 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 395019002805 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395019002806 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 395019002807 Fatty acid desaturase; Region: FA_desaturase; pfam00487 395019002808 Di-iron ligands [ion binding]; other site 395019002809 Transposase; Region: DDE_Tnp_ISL3; pfam01610 395019002810 quinolinate synthetase; Provisional; Region: PRK09375 395019002811 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 395019002812 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 395019002813 dimerization interface [polypeptide binding]; other site 395019002814 active site 395019002815 L-aspartate oxidase; Provisional; Region: PRK09077 395019002816 L-aspartate oxidase; Provisional; Region: PRK06175 395019002817 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395019002818 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 395019002819 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 395019002820 hypothetical protein; Reviewed; Region: PRK00024 395019002821 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 395019002822 MPN+ (JAMM) motif; other site 395019002823 Zinc-binding site [ion binding]; other site 395019002824 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 395019002825 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 395019002826 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019002827 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395019002828 TM-ABC transporter signature motif; other site 395019002829 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395019002830 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395019002831 TM-ABC transporter signature motif; other site 395019002832 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395019002833 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395019002834 Walker A/P-loop; other site 395019002835 ATP binding site [chemical binding]; other site 395019002836 Q-loop/lid; other site 395019002837 ABC transporter signature motif; other site 395019002838 Walker B; other site 395019002839 D-loop; other site 395019002840 H-loop/switch region; other site 395019002841 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395019002842 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395019002843 Walker A/P-loop; other site 395019002844 ATP binding site [chemical binding]; other site 395019002845 Q-loop/lid; other site 395019002846 ABC transporter signature motif; other site 395019002847 Walker B; other site 395019002848 D-loop; other site 395019002849 H-loop/switch region; other site 395019002850 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 395019002851 putative acetyltransferase; Provisional; Region: PRK03624 395019002852 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019002853 Coenzyme A binding pocket [chemical binding]; other site 395019002854 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 395019002855 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 395019002856 inhibitor-cofactor binding pocket; inhibition site 395019002857 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019002858 catalytic residue [active] 395019002859 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 395019002860 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 395019002861 catalytic loop [active] 395019002862 iron binding site [ion binding]; other site 395019002863 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 395019002864 FAD binding pocket [chemical binding]; other site 395019002865 FAD binding motif [chemical binding]; other site 395019002866 phosphate binding motif [ion binding]; other site 395019002867 beta-alpha-beta structure motif; other site 395019002868 NAD binding pocket [chemical binding]; other site 395019002869 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395019002870 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 395019002871 putative NAD(P) binding site [chemical binding]; other site 395019002872 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395019002873 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 395019002874 active site 395019002875 uracil binding [chemical binding]; other site 395019002876 CopC domain; Region: CopC; pfam04234 395019002877 DinB superfamily; Region: DinB_2; pfam12867 395019002878 short chain dehydrogenase; Provisional; Region: PRK12744 395019002879 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019002880 NAD(P) binding site [chemical binding]; other site 395019002881 active site 395019002882 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019002883 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019002884 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 395019002885 putative effector binding pocket; other site 395019002886 putative dimerization interface [polypeptide binding]; other site 395019002887 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019002888 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019002889 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 395019002890 dimerization interface [polypeptide binding]; other site 395019002891 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395019002892 short chain dehydrogenase; Provisional; Region: PRK12937 395019002893 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 395019002894 NADP binding site [chemical binding]; other site 395019002895 homodimer interface [polypeptide binding]; other site 395019002896 active site 395019002897 substrate binding site [chemical binding]; other site 395019002898 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019002899 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 395019002900 putative ligand binding site [chemical binding]; other site 395019002901 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 395019002902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019002903 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 395019002904 substrate binding site [chemical binding]; other site 395019002905 dimerization interface [polypeptide binding]; other site 395019002906 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 395019002907 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395019002908 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395019002909 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 395019002910 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 395019002911 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 395019002912 Active Sites [active] 395019002913 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 395019002914 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 395019002915 Active Sites [active] 395019002916 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 395019002917 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 395019002918 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 395019002919 CysD dimerization site [polypeptide binding]; other site 395019002920 G1 box; other site 395019002921 putative GEF interaction site [polypeptide binding]; other site 395019002922 GTP/Mg2+ binding site [chemical binding]; other site 395019002923 Switch I region; other site 395019002924 G2 box; other site 395019002925 G3 box; other site 395019002926 Switch II region; other site 395019002927 G4 box; other site 395019002928 G5 box; other site 395019002929 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 395019002930 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 395019002931 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 395019002932 active site 395019002933 SAM binding site [chemical binding]; other site 395019002934 homodimer interface [polypeptide binding]; other site 395019002935 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 395019002936 putative active site [active] 395019002937 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 395019002938 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 395019002939 Predicted permeases [General function prediction only]; Region: COG0795 395019002940 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 395019002941 multifunctional aminopeptidase A; Provisional; Region: PRK00913 395019002942 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 395019002943 interface (dimer of trimers) [polypeptide binding]; other site 395019002944 Substrate-binding/catalytic site; other site 395019002945 Zn-binding sites [ion binding]; other site 395019002946 DNA polymerase III subunit chi; Validated; Region: PRK05728 395019002947 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 395019002948 Cytochrome c; Region: Cytochrom_C; cl11414 395019002949 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 395019002950 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 395019002951 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019002952 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 395019002953 putative dimerization interface [polypeptide binding]; other site 395019002954 putative substrate binding pocket [chemical binding]; other site 395019002955 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 395019002956 Protein of unknown function (DUF541); Region: SIMPL; cl01077 395019002957 EVE domain; Region: EVE; cl00728 395019002958 Cell division protein ZapA; Region: ZapA; pfam05164 395019002959 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 395019002960 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 395019002961 ABC-ATPase subunit interface; other site 395019002962 dimer interface [polypeptide binding]; other site 395019002963 putative PBP binding regions; other site 395019002964 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395019002965 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395019002966 Walker A/P-loop; other site 395019002967 ATP binding site [chemical binding]; other site 395019002968 Q-loop/lid; other site 395019002969 ABC transporter signature motif; other site 395019002970 Walker B; other site 395019002971 D-loop; other site 395019002972 H-loop/switch region; other site 395019002973 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 395019002974 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 395019002975 putative dimer interface [polypeptide binding]; other site 395019002976 active site pocket [active] 395019002977 putative cataytic base [active] 395019002978 cobalamin synthase; Reviewed; Region: cobS; PRK00235 395019002979 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 395019002980 catalytic core [active] 395019002981 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 395019002982 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 395019002983 cobalamin binding residues [chemical binding]; other site 395019002984 putative BtuC binding residues; other site 395019002985 dimer interface [polypeptide binding]; other site 395019002986 putative threonine-phosphate decarboxylase; Provisional; Region: PRK06959 395019002987 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 395019002988 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019002989 catalytic residue [active] 395019002990 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 395019002991 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 395019002992 homotrimer interface [polypeptide binding]; other site 395019002993 Walker A motif; other site 395019002994 GTP binding site [chemical binding]; other site 395019002995 Walker B motif; other site 395019002996 cobyric acid synthase; Provisional; Region: PRK00784 395019002997 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 395019002998 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 395019002999 catalytic triad [active] 395019003000 DoxX; Region: DoxX; cl17842 395019003001 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395019003002 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 395019003003 P-loop; other site 395019003004 Magnesium ion binding site [ion binding]; other site 395019003005 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 395019003006 tetramerization interface [polypeptide binding]; other site 395019003007 active site 395019003008 pantoate--beta-alanine ligase; Region: panC; TIGR00018 395019003009 Pantoate-beta-alanine ligase; Region: PanC; cd00560 395019003010 active site 395019003011 ATP-binding site [chemical binding]; other site 395019003012 pantoate-binding site; other site 395019003013 HXXH motif; other site 395019003014 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 395019003015 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 395019003016 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 395019003017 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395019003018 Surface antigen; Region: Bac_surface_Ag; pfam01103 395019003019 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 395019003020 Family of unknown function (DUF490); Region: DUF490; pfam04357 395019003021 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 395019003022 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 395019003023 active site 395019003024 HIGH motif; other site 395019003025 KMSKS motif; other site 395019003026 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 395019003027 tRNA binding surface [nucleotide binding]; other site 395019003028 anticodon binding site; other site 395019003029 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 395019003030 dimer interface [polypeptide binding]; other site 395019003031 putative tRNA-binding site [nucleotide binding]; other site 395019003032 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395019003033 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019003034 ligand binding site [chemical binding]; other site 395019003035 Domain of unknown function DUF59; Region: DUF59; pfam01883 395019003036 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 395019003037 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 395019003038 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 395019003039 E-class dimer interface [polypeptide binding]; other site 395019003040 P-class dimer interface [polypeptide binding]; other site 395019003041 active site 395019003042 Cu2+ binding site [ion binding]; other site 395019003043 Zn2+ binding site [ion binding]; other site 395019003044 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 395019003045 trimer interface [polypeptide binding]; other site 395019003046 active site 395019003047 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 395019003048 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 395019003049 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 395019003050 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019003051 catalytic residue [active] 395019003052 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 395019003053 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 395019003054 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 395019003055 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 395019003056 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 395019003057 motif II; other site 395019003058 argininosuccinate lyase; Provisional; Region: PRK00855 395019003059 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 395019003060 active sites [active] 395019003061 tetramer interface [polypeptide binding]; other site 395019003062 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019003063 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 395019003064 sequence-specific DNA binding site [nucleotide binding]; other site 395019003065 salt bridge; other site 395019003066 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395019003067 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 395019003068 S-adenosylmethionine binding site [chemical binding]; other site 395019003069 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 395019003070 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 395019003071 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 395019003072 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 395019003073 domain interfaces; other site 395019003074 active site 395019003075 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 395019003076 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 395019003077 active site 395019003078 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 395019003079 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 395019003080 HemY protein N-terminus; Region: HemY_N; pfam07219 395019003081 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 395019003082 TPR motif; other site 395019003083 binding surface 395019003084 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 395019003085 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 395019003086 putative substrate translocation pore; other site 395019003087 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 395019003088 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 395019003089 putative NAD(P) binding site [chemical binding]; other site 395019003090 active site 395019003091 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019003092 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 395019003093 NAD(P) binding site [chemical binding]; other site 395019003094 catalytic residues [active] 395019003095 catalytic residues [active] 395019003096 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 395019003097 dimer interface [polypeptide binding]; other site 395019003098 substrate binding site [chemical binding]; other site 395019003099 metal binding sites [ion binding]; metal-binding site 395019003100 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 395019003101 GIY-YIG motif/motif A; other site 395019003102 putative active site [active] 395019003103 putative metal binding site [ion binding]; other site 395019003104 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 395019003105 Protein of unknown function, DUF482; Region: DUF482; pfam04339 395019003106 NAD synthetase; Provisional; Region: PRK13981 395019003107 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 395019003108 multimer interface [polypeptide binding]; other site 395019003109 active site 395019003110 catalytic triad [active] 395019003111 protein interface 1 [polypeptide binding]; other site 395019003112 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 395019003113 homodimer interface [polypeptide binding]; other site 395019003114 NAD binding pocket [chemical binding]; other site 395019003115 ATP binding pocket [chemical binding]; other site 395019003116 Mg binding site [ion binding]; other site 395019003117 active-site loop [active] 395019003118 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 395019003119 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395019003120 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019003121 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019003122 trimer interface [polypeptide binding]; other site 395019003123 eyelet of channel; other site 395019003124 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019003125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019003126 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 395019003127 putative substrate binding pocket [chemical binding]; other site 395019003128 dimerization interface [polypeptide binding]; other site 395019003129 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019003130 Coenzyme A binding pocket [chemical binding]; other site 395019003131 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 395019003132 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 395019003133 Walker A/P-loop; other site 395019003134 ATP binding site [chemical binding]; other site 395019003135 Q-loop/lid; other site 395019003136 ABC transporter signature motif; other site 395019003137 Walker B; other site 395019003138 D-loop; other site 395019003139 H-loop/switch region; other site 395019003140 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395019003141 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 395019003142 dimer interface [polypeptide binding]; other site 395019003143 conserved gate region; other site 395019003144 putative PBP binding loops; other site 395019003145 ABC-ATPase subunit interface; other site 395019003146 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395019003147 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 395019003148 dimer interface [polypeptide binding]; other site 395019003149 conserved gate region; other site 395019003150 putative PBP binding loops; other site 395019003151 ABC-ATPase subunit interface; other site 395019003152 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 395019003153 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 395019003154 substrate binding pocket [chemical binding]; other site 395019003155 membrane-bound complex binding site; other site 395019003156 hinge residues; other site 395019003157 Pirin-related protein [General function prediction only]; Region: COG1741 395019003158 Pirin; Region: Pirin; pfam02678 395019003159 Heavy-metal resistance; Region: Metal_resist; pfam13801 395019003160 osmolarity response regulator; Provisional; Region: ompR; PRK09468 395019003161 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 395019003162 active site 395019003163 phosphorylation site [posttranslational modification] 395019003164 intermolecular recognition site; other site 395019003165 dimerization interface [polypeptide binding]; other site 395019003166 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 395019003167 DNA binding site [nucleotide binding] 395019003168 HAMP domain; Region: HAMP; pfam00672 395019003169 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 395019003170 dimer interface [polypeptide binding]; other site 395019003171 phosphorylation site [posttranslational modification] 395019003172 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 395019003173 ATP binding site [chemical binding]; other site 395019003174 Mg2+ binding site [ion binding]; other site 395019003175 G-X-G motif; other site 395019003176 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 395019003177 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 395019003178 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 395019003179 dimer interface [polypeptide binding]; other site 395019003180 conserved gate region; other site 395019003181 putative PBP binding loops; other site 395019003182 ABC-ATPase subunit interface; other site 395019003183 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 395019003184 dimer interface [polypeptide binding]; other site 395019003185 conserved gate region; other site 395019003186 putative PBP binding loops; other site 395019003187 ABC-ATPase subunit interface; other site 395019003188 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395019003189 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395019003190 Walker A/P-loop; other site 395019003191 ATP binding site [chemical binding]; other site 395019003192 Q-loop/lid; other site 395019003193 ABC transporter signature motif; other site 395019003194 Walker B; other site 395019003195 D-loop; other site 395019003196 H-loop/switch region; other site 395019003197 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 395019003198 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 395019003199 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 395019003200 active site 395019003201 homotetramer interface [polypeptide binding]; other site 395019003202 Predicted ATPase [General function prediction only]; Region: COG3911 395019003203 AAA domain; Region: AAA_28; pfam13521 395019003204 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395019003205 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 395019003206 putative substrate translocation pore; other site 395019003207 ecotin; Provisional; Region: PRK03719 395019003208 secondary substrate binding site; other site 395019003209 primary substrate binding site; other site 395019003210 inhibition loop; other site 395019003211 dimerization interface [polypeptide binding]; other site 395019003212 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019003213 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019003214 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395019003215 classical (c) SDRs; Region: SDR_c; cd05233 395019003216 NAD(P) binding site [chemical binding]; other site 395019003217 active site 395019003218 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 395019003219 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 395019003220 S-adenosylmethionine binding site [chemical binding]; other site 395019003221 Erythromycin esterase; Region: Erythro_esteras; pfam05139 395019003222 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395019003223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019003224 NAD(P) binding site [chemical binding]; other site 395019003225 active site 395019003226 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019003227 MULE transposase domain; Region: MULE; pfam10551 395019003228 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395019003229 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 395019003230 DNA-binding interface [nucleotide binding]; DNA binding site 395019003231 TIR domain; Region: TIR_2; pfam13676 395019003232 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 395019003233 Rubredoxin; Region: Rubredoxin; pfam00301 395019003234 iron binding site [ion binding]; other site 395019003235 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 395019003236 ABC transporter ATPase component; Reviewed; Region: PRK11147 395019003237 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 395019003238 Walker A/P-loop; other site 395019003239 ATP binding site [chemical binding]; other site 395019003240 Q-loop/lid; other site 395019003241 ABC transporter signature motif; other site 395019003242 Walker B; other site 395019003243 D-loop; other site 395019003244 H-loop/switch region; other site 395019003245 ABC transporter; Region: ABC_tran_2; pfam12848 395019003246 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395019003247 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 395019003248 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 395019003249 ATP binding site [chemical binding]; other site 395019003250 Mg2+ binding site [ion binding]; other site 395019003251 G-X-G motif; other site 395019003252 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 395019003253 anchoring element; other site 395019003254 dimer interface [polypeptide binding]; other site 395019003255 ATP binding site [chemical binding]; other site 395019003256 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 395019003257 active site 395019003258 metal binding site [ion binding]; metal-binding site 395019003259 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 395019003260 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 395019003261 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 395019003262 CAP-like domain; other site 395019003263 active site 395019003264 primary dimer interface [polypeptide binding]; other site 395019003265 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395019003266 Predicted integral membrane protein [Function unknown]; Region: COG5615 395019003267 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019003268 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019003269 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 395019003270 dimerization interface [polypeptide binding]; other site 395019003271 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 395019003272 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 395019003273 Chromate transporter; Region: Chromate_transp; pfam02417 395019003274 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 395019003275 Chromate transporter; Region: Chromate_transp; pfam02417 395019003276 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019003277 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019003278 metal binding site [ion binding]; metal-binding site 395019003279 active site 395019003280 I-site; other site 395019003281 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 395019003282 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 395019003283 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 395019003284 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 395019003285 homotrimer interaction site [polypeptide binding]; other site 395019003286 putative active site [active] 395019003287 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 395019003288 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 395019003289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019003290 homodimer interface [polypeptide binding]; other site 395019003291 catalytic residue [active] 395019003292 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395019003293 EamA-like transporter family; Region: EamA; pfam00892 395019003294 EamA-like transporter family; Region: EamA; pfam00892 395019003295 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 395019003296 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019003297 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019003298 DNA-binding site [nucleotide binding]; DNA binding site 395019003299 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 395019003300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019003301 homodimer interface [polypeptide binding]; other site 395019003302 catalytic residue [active] 395019003303 heat shock protein 90; Provisional; Region: PRK05218 395019003304 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 395019003305 ATP binding site [chemical binding]; other site 395019003306 Mg2+ binding site [ion binding]; other site 395019003307 G-X-G motif; other site 395019003308 Chorismate lyase; Region: Chor_lyase; cl01230 395019003309 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 395019003310 putative active site [active] 395019003311 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 395019003312 non-specific DNA binding site [nucleotide binding]; other site 395019003313 salt bridge; other site 395019003314 sequence-specific DNA binding site [nucleotide binding]; other site 395019003315 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 395019003316 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 395019003317 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 395019003318 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 395019003319 Na binding site [ion binding]; other site 395019003320 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 395019003321 dimer interface [polypeptide binding]; other site 395019003322 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019003323 transaldolase-like protein; Provisional; Region: PTZ00411 395019003324 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 395019003325 active site 395019003326 dimer interface [polypeptide binding]; other site 395019003327 catalytic residue [active] 395019003328 Benzoate membrane transport protein; Region: BenE; pfam03594 395019003329 benzoate transporter; Region: benE; TIGR00843 395019003330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 395019003331 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395019003332 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 395019003333 Walker A motif; other site 395019003334 ATP binding site [chemical binding]; other site 395019003335 Walker B motif; other site 395019003336 arginine finger; other site 395019003337 Cytochrome c553 [Energy production and conversion]; Region: COG2863 395019003338 Cytochrome c; Region: Cytochrom_C; cl11414 395019003339 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 395019003340 EamA-like transporter family; Region: EamA; pfam00892 395019003341 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395019003342 EamA-like transporter family; Region: EamA; pfam00892 395019003343 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 395019003344 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395019003345 minor groove reading motif; other site 395019003346 helix-hairpin-helix signature motif; other site 395019003347 substrate binding pocket [chemical binding]; other site 395019003348 active site 395019003349 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 395019003350 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 395019003351 Putative Fe-S cluster; Region: FeS; pfam04060 395019003352 4Fe-4S binding domain; Region: Fer4; pfam00037 395019003353 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019003354 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019003355 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 395019003356 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 395019003357 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 395019003358 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 395019003359 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 395019003360 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 395019003361 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 395019003362 META domain; Region: META; pfam03724 395019003363 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 395019003364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019003365 ATP-grasp domain; Region: ATP-grasp; pfam02222 395019003366 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 395019003367 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 395019003368 DEAD-like helicases superfamily; Region: DEXDc; smart00487 395019003369 ATP binding site [chemical binding]; other site 395019003370 Mg++ binding site [ion binding]; other site 395019003371 motif III; other site 395019003372 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 395019003373 nucleotide binding region [chemical binding]; other site 395019003374 ATP-binding site [chemical binding]; other site 395019003375 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 395019003376 active site 395019003377 HIGH motif; other site 395019003378 nucleotide binding site [chemical binding]; other site 395019003379 active site 395019003380 KMSKS motif; other site 395019003381 rhodanese superfamily protein; Provisional; Region: PRK05320 395019003382 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 395019003383 active site residue [active] 395019003384 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 395019003385 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 395019003386 putative active site [active] 395019003387 putative PHP Thumb interface [polypeptide binding]; other site 395019003388 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 395019003389 generic binding surface II; other site 395019003390 generic binding surface I; other site 395019003391 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395019003392 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 395019003393 putative active site [active] 395019003394 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395019003395 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 395019003396 active site 395019003397 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 395019003398 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 395019003399 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 395019003400 putative metal binding site; other site 395019003401 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 395019003402 O-Antigen ligase; Region: Wzy_C; pfam04932 395019003403 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 395019003404 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395019003405 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 395019003406 Walker A/P-loop; other site 395019003407 ATP binding site [chemical binding]; other site 395019003408 Q-loop/lid; other site 395019003409 ABC transporter signature motif; other site 395019003410 Walker B; other site 395019003411 D-loop; other site 395019003412 H-loop/switch region; other site 395019003413 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 395019003414 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019003415 PRC-barrel domain; Region: PRC; pfam05239 395019003416 Protein with unknown function (DUF469); Region: DUF469; pfam04320 395019003417 ribonuclease G; Provisional; Region: PRK11712 395019003418 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 395019003419 homodimer interface [polypeptide binding]; other site 395019003420 oligonucleotide binding site [chemical binding]; other site 395019003421 Maf-like protein; Region: Maf; pfam02545 395019003422 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 395019003423 active site 395019003424 dimer interface [polypeptide binding]; other site 395019003425 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 395019003426 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 395019003427 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 395019003428 active site 395019003429 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 395019003430 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 395019003431 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 395019003432 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 395019003433 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 395019003434 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 395019003435 hypothetical protein; Validated; Region: PRK00110 395019003436 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395019003437 active site 395019003438 short chain dehydrogenase; Provisional; Region: PRK08339 395019003439 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395019003440 putative NAD(P) binding site [chemical binding]; other site 395019003441 putative active site [active] 395019003442 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 395019003443 substrate binding site [chemical binding]; other site 395019003444 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 395019003445 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 395019003446 NADP binding site [chemical binding]; other site 395019003447 dimer interface [polypeptide binding]; other site 395019003448 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 395019003449 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 395019003450 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395019003451 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 395019003452 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 395019003453 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 395019003454 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 395019003455 Ligand Binding Site [chemical binding]; other site 395019003456 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 395019003457 GAF domain; Region: GAF_3; pfam13492 395019003458 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 395019003459 dimer interface [polypeptide binding]; other site 395019003460 phosphorylation site [posttranslational modification] 395019003461 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 395019003462 ATP binding site [chemical binding]; other site 395019003463 Mg2+ binding site [ion binding]; other site 395019003464 G-X-G motif; other site 395019003465 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 395019003466 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 395019003467 active site 395019003468 phosphorylation site [posttranslational modification] 395019003469 intermolecular recognition site; other site 395019003470 dimerization interface [polypeptide binding]; other site 395019003471 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 395019003472 DNA binding site [nucleotide binding] 395019003473 Domain of unknown function (DUF333); Region: DUF333; pfam03891 395019003474 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 395019003475 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 395019003476 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 395019003477 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 395019003478 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 395019003479 apolar tunnel; other site 395019003480 heme binding site [chemical binding]; other site 395019003481 dimerization interface [polypeptide binding]; other site 395019003482 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 395019003483 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 395019003484 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 395019003485 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395019003486 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 395019003487 glucose-1-dehydrogenase; Provisional; Region: PRK06947 395019003488 classical (c) SDRs; Region: SDR_c; cd05233 395019003489 NAD(P) binding site [chemical binding]; other site 395019003490 active site 395019003491 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 395019003492 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019003493 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019003494 Bacterial transcriptional repressor; Region: TetR; pfam13972 395019003495 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 395019003496 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395019003497 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 395019003498 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 395019003499 putative active site [active] 395019003500 putative metal binding site [ion binding]; other site 395019003501 RDD family; Region: RDD; pfam06271 395019003502 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 395019003503 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 395019003504 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019003505 RNA polymerase factor sigma-70; Validated; Region: PRK09047 395019003506 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 395019003507 DNA binding residues [nucleotide binding] 395019003508 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 395019003509 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395019003510 PYR/PP interface [polypeptide binding]; other site 395019003511 dimer interface [polypeptide binding]; other site 395019003512 TPP binding site [chemical binding]; other site 395019003513 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395019003514 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 395019003515 TPP-binding site [chemical binding]; other site 395019003516 dimer interface [polypeptide binding]; other site 395019003517 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 395019003518 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 395019003519 putative valine binding site [chemical binding]; other site 395019003520 dimer interface [polypeptide binding]; other site 395019003521 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 395019003522 ketol-acid reductoisomerase; Provisional; Region: PRK05479 395019003523 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 395019003524 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 395019003525 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 395019003526 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 395019003527 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 395019003528 2-isopropylmalate synthase; Validated; Region: PRK00915 395019003529 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 395019003530 active site 395019003531 catalytic residues [active] 395019003532 metal binding site [ion binding]; metal-binding site 395019003533 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 395019003534 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 395019003535 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 395019003536 Sulfate transporter family; Region: Sulfate_transp; pfam00916 395019003537 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 395019003538 Sulfate transporter family; Region: Sulfate_transp; pfam00916 395019003539 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 395019003540 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 395019003541 active site clefts [active] 395019003542 zinc binding site [ion binding]; other site 395019003543 dimer interface [polypeptide binding]; other site 395019003544 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395019003545 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 395019003546 putative ligand binding site [chemical binding]; other site 395019003547 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 395019003548 16S/18S rRNA binding site [nucleotide binding]; other site 395019003549 S13e-L30e interaction site [polypeptide binding]; other site 395019003550 25S rRNA binding site [nucleotide binding]; other site 395019003551 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 395019003552 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 395019003553 RNase E interface [polypeptide binding]; other site 395019003554 trimer interface [polypeptide binding]; other site 395019003555 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 395019003556 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 395019003557 RNase E interface [polypeptide binding]; other site 395019003558 trimer interface [polypeptide binding]; other site 395019003559 active site 395019003560 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 395019003561 putative nucleic acid binding region [nucleotide binding]; other site 395019003562 G-X-X-G motif; other site 395019003563 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 395019003564 RNA binding site [nucleotide binding]; other site 395019003565 domain interface; other site 395019003566 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 395019003567 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 395019003568 NAD(P) binding site [chemical binding]; other site 395019003569 triosephosphate isomerase; Provisional; Region: PRK14567 395019003570 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 395019003571 substrate binding site [chemical binding]; other site 395019003572 dimer interface [polypeptide binding]; other site 395019003573 catalytic triad [active] 395019003574 Preprotein translocase SecG subunit; Region: SecG; pfam03840 395019003575 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 395019003576 NADH dehydrogenase subunit B; Validated; Region: PRK06411 395019003577 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 395019003578 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 395019003579 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 395019003580 NADH dehydrogenase subunit D; Validated; Region: PRK06075 395019003581 NADH dehydrogenase subunit E; Validated; Region: PRK07539 395019003582 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 395019003583 putative dimer interface [polypeptide binding]; other site 395019003584 [2Fe-2S] cluster binding site [ion binding]; other site 395019003585 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 395019003586 SLBB domain; Region: SLBB; pfam10531 395019003587 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 395019003588 NADH dehydrogenase subunit G; Validated; Region: PRK09129 395019003589 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 395019003590 catalytic loop [active] 395019003591 iron binding site [ion binding]; other site 395019003592 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 395019003593 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 395019003594 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 395019003595 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 395019003596 4Fe-4S binding domain; Region: Fer4; cl02805 395019003597 4Fe-4S binding domain; Region: Fer4; pfam00037 395019003598 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 395019003599 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 395019003600 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 395019003601 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 395019003602 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 395019003603 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395019003604 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 395019003605 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395019003606 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 395019003607 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395019003608 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 395019003609 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 395019003610 dimer interface [polypeptide binding]; other site 395019003611 ADP-ribose binding site [chemical binding]; other site 395019003612 active site 395019003613 nudix motif; other site 395019003614 metal binding site [ion binding]; metal-binding site 395019003615 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 395019003616 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 395019003617 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 395019003618 FAD binding site [chemical binding]; other site 395019003619 substrate binding site [chemical binding]; other site 395019003620 catalytic base [active] 395019003621 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 395019003622 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 395019003623 active site 395019003624 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 395019003625 putative active site [active] 395019003626 putative catalytic site [active] 395019003627 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 395019003628 putative active site [active] 395019003629 putative catalytic site [active] 395019003630 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 395019003631 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 395019003632 C-terminal domain interface [polypeptide binding]; other site 395019003633 GSH binding site (G-site) [chemical binding]; other site 395019003634 dimer interface [polypeptide binding]; other site 395019003635 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 395019003636 N-terminal domain interface [polypeptide binding]; other site 395019003637 putative dimer interface [polypeptide binding]; other site 395019003638 active site 395019003639 enoyl-CoA hydratase; Provisional; Region: PRK07511 395019003640 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 395019003641 substrate binding site [chemical binding]; other site 395019003642 oxyanion hole (OAH) forming residues; other site 395019003643 trimer interface [polypeptide binding]; other site 395019003644 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395019003645 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 395019003646 C-terminal domain interface [polypeptide binding]; other site 395019003647 GSH binding site (G-site) [chemical binding]; other site 395019003648 dimer interface [polypeptide binding]; other site 395019003649 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 395019003650 putative N-terminal domain interface [polypeptide binding]; other site 395019003651 putative dimer interface [polypeptide binding]; other site 395019003652 putative substrate binding pocket (H-site) [chemical binding]; other site 395019003653 methionine aminotransferase; Validated; Region: PRK09082 395019003654 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 395019003655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019003656 homodimer interface [polypeptide binding]; other site 395019003657 catalytic residue [active] 395019003658 PIN domain; Region: PIN_3; pfam13470 395019003659 hypothetical protein; Validated; Region: PRK02101 395019003660 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 395019003661 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 395019003662 putative active site [active] 395019003663 Zn binding site [ion binding]; other site 395019003664 Predicted membrane protein [Function unknown]; Region: COG3235 395019003665 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019003666 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 395019003667 active site 395019003668 phosphorylation site [posttranslational modification] 395019003669 dimerization interface [polypeptide binding]; other site 395019003670 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 395019003671 DNA binding residues [nucleotide binding] 395019003672 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 395019003673 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 395019003674 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 395019003675 DNA binding residues [nucleotide binding] 395019003676 dimer interface [polypeptide binding]; other site 395019003677 copper binding site [ion binding]; other site 395019003678 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 395019003679 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 395019003680 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 395019003681 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 395019003682 active site 395019003683 catalytic tetrad [active] 395019003684 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 395019003685 classical (c) SDRs; Region: SDR_c; cd05233 395019003686 NAD(P) binding site [chemical binding]; other site 395019003687 active site 395019003688 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 395019003689 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 395019003690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019003691 homodimer interface [polypeptide binding]; other site 395019003692 catalytic residue [active] 395019003693 excinuclease ABC subunit B; Provisional; Region: PRK05298 395019003694 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 395019003695 ATP binding site [chemical binding]; other site 395019003696 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 395019003697 nucleotide binding region [chemical binding]; other site 395019003698 ATP-binding site [chemical binding]; other site 395019003699 Ultra-violet resistance protein B; Region: UvrB; pfam12344 395019003700 UvrB/uvrC motif; Region: UVR; pfam02151 395019003701 Fe2+ transport protein; Region: Iron_transport; pfam10634 395019003702 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 395019003703 Iron permease FTR1 family; Region: FTR1; cl00475 395019003704 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 395019003705 4Fe-4S binding domain; Region: Fer4_5; pfam12801 395019003706 Hemin uptake protein hemP; Region: hemP; pfam10636 395019003707 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 395019003708 putative hydrophobic ligand binding site [chemical binding]; other site 395019003709 Pirin-related protein [General function prediction only]; Region: COG1741 395019003710 Pirin; Region: Pirin; pfam02678 395019003711 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 395019003712 LysR family transcriptional regulator; Provisional; Region: PRK14997 395019003713 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019003714 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 395019003715 putative effector binding pocket; other site 395019003716 putative dimerization interface [polypeptide binding]; other site 395019003717 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 395019003718 TolR protein; Region: tolR; TIGR02801 395019003719 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 395019003720 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 395019003721 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 395019003722 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 395019003723 glutamate racemase; Provisional; Region: PRK00865 395019003724 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 395019003725 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 395019003726 heme binding site [chemical binding]; other site 395019003727 ferroxidase pore; other site 395019003728 ferroxidase diiron center [ion binding]; other site 395019003729 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 395019003730 Fumarase C-terminus; Region: Fumerase_C; pfam05683 395019003731 hypothetical protein; Provisional; Region: PRK05208 395019003732 EamA-like transporter family; Region: EamA; pfam00892 395019003733 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395019003734 EamA-like transporter family; Region: EamA; pfam00892 395019003735 acetyl-CoA synthetase; Provisional; Region: PRK00174 395019003736 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 395019003737 active site 395019003738 CoA binding site [chemical binding]; other site 395019003739 acyl-activating enzyme (AAE) consensus motif; other site 395019003740 AMP binding site [chemical binding]; other site 395019003741 acetate binding site [chemical binding]; other site 395019003742 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 395019003743 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 395019003744 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 395019003745 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 395019003746 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 395019003747 N-terminal plug; other site 395019003748 ligand-binding site [chemical binding]; other site 395019003749 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 395019003750 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 395019003751 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 395019003752 D-galactonate transporter; Region: 2A0114; TIGR00893 395019003753 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 395019003754 putative substrate translocation pore; other site 395019003755 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 395019003756 putative substrate translocation pore; other site 395019003757 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019003758 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019003759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019003760 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 395019003761 dimerization interface [polypeptide binding]; other site 395019003762 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 395019003763 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 395019003764 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 395019003765 active sites [active] 395019003766 tetramer interface [polypeptide binding]; other site 395019003767 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 395019003768 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019003769 DNA-binding site [nucleotide binding]; DNA binding site 395019003770 UTRA domain; Region: UTRA; pfam07702 395019003771 urocanate hydratase; Provisional; Region: PRK05414 395019003772 HutD; Region: HutD; pfam05962 395019003773 imidazolonepropionase; Validated; Region: PRK09356 395019003774 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 395019003775 active site 395019003776 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 395019003777 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 395019003778 active site 395019003779 N-formylglutamate amidohydrolase; Region: FGase; cl01522 395019003780 Peptidase C26; Region: Peptidase_C26; pfam07722 395019003781 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 395019003782 catalytic triad [active] 395019003783 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 395019003784 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395019003785 putative aminotransferase; Validated; Region: PRK07480 395019003786 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 395019003787 inhibitor-cofactor binding pocket; inhibition site 395019003788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019003789 catalytic residue [active] 395019003790 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 395019003791 ligand-binding site [chemical binding]; other site 395019003792 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395019003793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019003794 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 395019003795 dimerization interface [polypeptide binding]; other site 395019003796 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395019003797 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395019003798 active site 395019003799 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395019003800 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395019003801 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 395019003802 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019003803 putative substrate translocation pore; other site 395019003804 oxidative damage protection protein; Provisional; Region: PRK05408 395019003805 N-acetylglutamate synthase; Validated; Region: PRK05279 395019003806 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 395019003807 putative feedback inhibition sensing region; other site 395019003808 putative nucleotide binding site [chemical binding]; other site 395019003809 putative substrate binding site [chemical binding]; other site 395019003810 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019003811 Coenzyme A binding pocket [chemical binding]; other site 395019003812 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 395019003813 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 395019003814 ATP binding site [chemical binding]; other site 395019003815 putative Mg++ binding site [ion binding]; other site 395019003816 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 395019003817 nucleotide binding region [chemical binding]; other site 395019003818 ATP-binding site [chemical binding]; other site 395019003819 Helicase associated domain (HA2); Region: HA2; pfam04408 395019003820 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 395019003821 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 395019003822 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 395019003823 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 395019003824 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 395019003825 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 395019003826 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 395019003827 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 395019003828 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 395019003829 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 395019003830 putative MPT binding site; other site 395019003831 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 395019003832 active site residue [active] 395019003833 glutamine synthetase; Provisional; Region: glnA; PRK09469 395019003834 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 395019003835 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395019003836 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395019003837 PAS domain; Region: PAS; smart00091 395019003838 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 395019003839 dimer interface [polypeptide binding]; other site 395019003840 phosphorylation site [posttranslational modification] 395019003841 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 395019003842 ATP binding site [chemical binding]; other site 395019003843 Mg2+ binding site [ion binding]; other site 395019003844 G-X-G motif; other site 395019003845 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 395019003846 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 395019003847 active site 395019003848 phosphorylation site [posttranslational modification] 395019003849 intermolecular recognition site; other site 395019003850 dimerization interface [polypeptide binding]; other site 395019003851 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 395019003852 Walker A motif; other site 395019003853 ATP binding site [chemical binding]; other site 395019003854 Walker B motif; other site 395019003855 arginine finger; other site 395019003856 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395019003857 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 395019003858 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395019003859 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 395019003860 putative catalytic site [active] 395019003861 putative phosphate binding site [ion binding]; other site 395019003862 active site 395019003863 metal binding site A [ion binding]; metal-binding site 395019003864 DNA binding site [nucleotide binding] 395019003865 putative AP binding site [nucleotide binding]; other site 395019003866 putative metal binding site B [ion binding]; other site 395019003867 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 395019003868 aspartate racemase; Region: asp_race; TIGR00035 395019003869 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 395019003870 active site 395019003871 DNA polymerase IV; Validated; Region: PRK02406 395019003872 DNA binding site [nucleotide binding] 395019003873 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 395019003874 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 395019003875 active site 395019003876 Zn binding site [ion binding]; other site 395019003877 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 395019003878 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 395019003879 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 395019003880 homodimer interface [polypeptide binding]; other site 395019003881 NADP binding site [chemical binding]; other site 395019003882 substrate binding site [chemical binding]; other site 395019003883 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395019003884 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 395019003885 active site 395019003886 phosphorylation site [posttranslational modification] 395019003887 intermolecular recognition site; other site 395019003888 dimerization interface [polypeptide binding]; other site 395019003889 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 395019003890 DNA binding residues [nucleotide binding] 395019003891 dimerization interface [polypeptide binding]; other site 395019003892 PAS domain S-box; Region: sensory_box; TIGR00229 395019003893 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 395019003894 putative active site [active] 395019003895 heme pocket [chemical binding]; other site 395019003896 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 395019003897 dimer interface [polypeptide binding]; other site 395019003898 phosphorylation site [posttranslational modification] 395019003899 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 395019003900 ATP binding site [chemical binding]; other site 395019003901 Mg2+ binding site [ion binding]; other site 395019003902 G-X-G motif; other site 395019003903 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 395019003904 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 395019003905 dimer interface [polypeptide binding]; other site 395019003906 TPP-binding site [chemical binding]; other site 395019003907 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 395019003908 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 395019003909 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 395019003910 E3 interaction surface; other site 395019003911 lipoyl attachment site [posttranslational modification]; other site 395019003912 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 395019003913 E3 interaction surface; other site 395019003914 lipoyl attachment site [posttranslational modification]; other site 395019003915 e3 binding domain; Region: E3_binding; pfam02817 395019003916 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 395019003917 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 395019003918 E3 interaction surface; other site 395019003919 lipoyl attachment site [posttranslational modification]; other site 395019003920 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 395019003921 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019003922 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019003923 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395019003924 Phasin protein; Region: Phasin_2; pfam09361 395019003925 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 395019003926 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 395019003927 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395019003928 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019003929 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019003930 Cysteine-rich domain; Region: CCG; pfam02754 395019003931 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 395019003932 Cysteine-rich domain; Region: CCG; pfam02754 395019003933 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 395019003934 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 395019003935 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 395019003936 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395019003937 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395019003938 active site 395019003939 Predicted transcriptional regulator [Transcription]; Region: COG1959 395019003940 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 395019003941 cysteine desulfurase; Provisional; Region: PRK14012 395019003942 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 395019003943 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019003944 catalytic residue [active] 395019003945 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 395019003946 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 395019003947 trimerization site [polypeptide binding]; other site 395019003948 active site 395019003949 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 395019003950 co-chaperone HscB; Provisional; Region: hscB; PRK03578 395019003951 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 395019003952 HSP70 interaction site [polypeptide binding]; other site 395019003953 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 395019003954 chaperone protein HscA; Provisional; Region: hscA; PRK05183 395019003955 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 395019003956 nucleotide binding site [chemical binding]; other site 395019003957 putative NEF/HSP70 interaction site [polypeptide binding]; other site 395019003958 SBD interface [polypeptide binding]; other site 395019003959 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 395019003960 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 395019003961 catalytic loop [active] 395019003962 iron binding site [ion binding]; other site 395019003963 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 395019003964 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 395019003965 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 395019003966 dimer interface [polypeptide binding]; other site 395019003967 putative anticodon binding site; other site 395019003968 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 395019003969 motif 1; other site 395019003970 active site 395019003971 motif 2; other site 395019003972 motif 3; other site 395019003973 This domain is found in peptide chain release factors; Region: PCRF; smart00937 395019003974 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 395019003975 RF-1 domain; Region: RF-1; pfam00472 395019003976 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 395019003977 DHH family; Region: DHH; pfam01368 395019003978 DHHA1 domain; Region: DHHA1; pfam02272 395019003979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 395019003980 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 395019003981 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395019003982 FtsX-like permease family; Region: FtsX; pfam02687 395019003983 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 395019003984 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395019003985 Walker A/P-loop; other site 395019003986 ATP binding site [chemical binding]; other site 395019003987 Q-loop/lid; other site 395019003988 ABC transporter signature motif; other site 395019003989 Walker B; other site 395019003990 D-loop; other site 395019003991 H-loop/switch region; other site 395019003992 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 395019003993 active site 395019003994 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 395019003995 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 395019003996 Competence protein; Region: Competence; pfam03772 395019003997 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395019003998 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 395019003999 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 395019004000 nucleophilic elbow; other site 395019004001 catalytic triad; other site 395019004002 CTP synthetase; Validated; Region: pyrG; PRK05380 395019004003 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 395019004004 Catalytic site [active] 395019004005 active site 395019004006 UTP binding site [chemical binding]; other site 395019004007 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 395019004008 active site 395019004009 putative oxyanion hole; other site 395019004010 catalytic triad [active] 395019004011 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 395019004012 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 395019004013 enolase; Provisional; Region: eno; PRK00077 395019004014 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 395019004015 dimer interface [polypeptide binding]; other site 395019004016 metal binding site [ion binding]; metal-binding site 395019004017 substrate binding pocket [chemical binding]; other site 395019004018 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 395019004019 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 395019004020 HTH-like domain; Region: HTH_21; pfam13276 395019004021 Integrase core domain; Region: rve; pfam00665 395019004022 Integrase core domain; Region: rve_2; pfam13333 395019004023 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019004024 MULE transposase domain; Region: MULE; pfam10551 395019004025 HTH-like domain; Region: HTH_21; pfam13276 395019004026 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019004027 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019004028 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019004029 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 395019004030 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 395019004031 dimerization interface [polypeptide binding]; other site 395019004032 domain crossover interface; other site 395019004033 redox-dependent activation switch; other site 395019004034 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 395019004035 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 395019004036 trimer interface [polypeptide binding]; other site 395019004037 putative metal binding site [ion binding]; other site 395019004038 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 395019004039 dinuclear metal binding motif [ion binding]; other site 395019004040 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395019004041 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395019004042 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 395019004043 catalytic site [active] 395019004044 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 395019004045 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 395019004046 active site 395019004047 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 395019004048 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 395019004049 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 395019004050 Peptidase family M50; Region: Peptidase_M50; pfam02163 395019004051 active site 395019004052 putative substrate binding region [chemical binding]; other site 395019004053 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 395019004054 active site 395019004055 HIGH motif; other site 395019004056 dimer interface [polypeptide binding]; other site 395019004057 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395019004058 active site 395019004059 KMSKS motif; other site 395019004060 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395019004061 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 395019004062 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 395019004063 dihydrodipicolinate synthase; Region: dapA; TIGR00674 395019004064 dimer interface [polypeptide binding]; other site 395019004065 active site 395019004066 catalytic residue [active] 395019004067 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 395019004068 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 395019004069 Uncharacterized conserved protein [Function unknown]; Region: COG2850 395019004070 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 395019004071 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 395019004072 MutS domain I; Region: MutS_I; pfam01624 395019004073 MutS domain II; Region: MutS_II; pfam05188 395019004074 MutS domain III; Region: MutS_III; pfam05192 395019004075 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 395019004076 Walker A/P-loop; other site 395019004077 ATP binding site [chemical binding]; other site 395019004078 Q-loop/lid; other site 395019004079 ABC transporter signature motif; other site 395019004080 Walker B; other site 395019004081 D-loop; other site 395019004082 H-loop/switch region; other site 395019004083 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019004084 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019004085 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 395019004086 PAAR motif; Region: PAAR_motif; pfam05488 395019004087 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 395019004088 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 395019004089 active site 395019004090 dimerization interface [polypeptide binding]; other site 395019004091 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 395019004092 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 395019004093 serine O-acetyltransferase; Region: cysE; TIGR01172 395019004094 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 395019004095 trimer interface [polypeptide binding]; other site 395019004096 active site 395019004097 substrate binding site [chemical binding]; other site 395019004098 CoA binding site [chemical binding]; other site 395019004099 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395019004100 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 395019004101 putative active site [active] 395019004102 putative metal binding site [ion binding]; other site 395019004103 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 395019004104 substrate binding site [chemical binding]; other site 395019004105 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 395019004106 substrate binding site [chemical binding]; other site 395019004107 TPR repeat; Region: TPR_11; pfam13414 395019004108 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 395019004109 binding surface 395019004110 TPR motif; other site 395019004111 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 395019004112 tRNA synthetases class I (C) catalytic domain; Region: tRNA-synt_1e; pfam01406 395019004113 active site 395019004114 HIGH motif; other site 395019004115 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 395019004116 KMSKS motif; other site 395019004117 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 395019004118 tRNA binding surface [nucleotide binding]; other site 395019004119 anticodon binding site; other site 395019004120 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395019004121 endonuclease III; Region: ENDO3c; smart00478 395019004122 minor groove reading motif; other site 395019004123 helix-hairpin-helix signature motif; other site 395019004124 substrate binding pocket [chemical binding]; other site 395019004125 active site 395019004126 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 395019004127 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 395019004128 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 395019004129 Ligand Binding Site [chemical binding]; other site 395019004130 TilS substrate binding domain; Region: TilS; pfam09179 395019004131 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 395019004132 aspartate kinase; Reviewed; Region: PRK06635 395019004133 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 395019004134 putative nucleotide binding site [chemical binding]; other site 395019004135 putative catalytic residues [active] 395019004136 putative Mg ion binding site [ion binding]; other site 395019004137 putative aspartate binding site [chemical binding]; other site 395019004138 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 395019004139 putative allosteric regulatory site; other site 395019004140 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 395019004141 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 395019004142 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395019004143 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 395019004144 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 395019004145 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 395019004146 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 395019004147 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 395019004148 D-pathway; other site 395019004149 Putative ubiquinol binding site [chemical binding]; other site 395019004150 Low-spin heme (heme b) binding site [chemical binding]; other site 395019004151 Putative water exit pathway; other site 395019004152 Binuclear center (heme o3/CuB) [ion binding]; other site 395019004153 K-pathway; other site 395019004154 Putative proton exit pathway; other site 395019004155 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 395019004156 Subunit I/III interface [polypeptide binding]; other site 395019004157 Subunit III/IV interface [polypeptide binding]; other site 395019004158 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 395019004159 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 395019004160 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 395019004161 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 395019004162 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 395019004163 dimer interface [polypeptide binding]; other site 395019004164 conserved gate region; other site 395019004165 putative PBP binding loops; other site 395019004166 ABC-ATPase subunit interface; other site 395019004167 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 395019004168 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 395019004169 dimer interface [polypeptide binding]; other site 395019004170 conserved gate region; other site 395019004171 putative PBP binding loops; other site 395019004172 ABC-ATPase subunit interface; other site 395019004173 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 395019004174 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395019004175 Walker A/P-loop; other site 395019004176 ATP binding site [chemical binding]; other site 395019004177 Q-loop/lid; other site 395019004178 ABC transporter signature motif; other site 395019004179 Walker B; other site 395019004180 D-loop; other site 395019004181 H-loop/switch region; other site 395019004182 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 395019004183 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395019004184 Walker A/P-loop; other site 395019004185 ATP binding site [chemical binding]; other site 395019004186 Q-loop/lid; other site 395019004187 ABC transporter signature motif; other site 395019004188 Walker B; other site 395019004189 D-loop; other site 395019004190 H-loop/switch region; other site 395019004191 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395019004192 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 395019004193 NlpC/P60 family; Region: NLPC_P60; pfam00877 395019004194 hypothetical protein; Provisional; Region: PRK10279 395019004195 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 395019004196 nucleophile elbow; other site 395019004197 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 395019004198 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 395019004199 active site 395019004200 HIGH motif; other site 395019004201 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 395019004202 active site 395019004203 KMSKS motif; other site 395019004204 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019004205 Coenzyme A binding pocket [chemical binding]; other site 395019004206 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 395019004207 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019004208 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019004209 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019004210 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 395019004211 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 395019004212 putative active site pocket [active] 395019004213 dimerization interface [polypeptide binding]; other site 395019004214 putative catalytic residue [active] 395019004215 malate synthase A; Region: malate_syn_A; TIGR01344 395019004216 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 395019004217 active site 395019004218 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 395019004219 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 395019004220 motif II; other site 395019004221 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019004222 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 395019004223 putative effector binding pocket; other site 395019004224 dimerization interface [polypeptide binding]; other site 395019004225 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 395019004226 Ligand Binding Site [chemical binding]; other site 395019004227 isocitrate lyase; Provisional; Region: PRK15063 395019004228 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 395019004229 tetramer interface [polypeptide binding]; other site 395019004230 active site 395019004231 Mg2+/Mn2+ binding site [ion binding]; other site 395019004232 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 395019004233 DEAD-like helicases superfamily; Region: DEXDc; smart00487 395019004234 ATP binding site [chemical binding]; other site 395019004235 Mg++ binding site [ion binding]; other site 395019004236 motif III; other site 395019004237 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 395019004238 nucleotide binding region [chemical binding]; other site 395019004239 ATP-binding site [chemical binding]; other site 395019004240 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 395019004241 acyl-CoA binding pocket [chemical binding]; other site 395019004242 CoA binding site [chemical binding]; other site 395019004243 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 395019004244 Glycoprotease family; Region: Peptidase_M22; pfam00814 395019004245 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 395019004246 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019004247 Coenzyme A binding pocket [chemical binding]; other site 395019004248 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395019004249 Fe-S cluster binding site [ion binding]; other site 395019004250 active site 395019004251 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 395019004252 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 395019004253 dimer interface [polypeptide binding]; other site 395019004254 substrate binding site [chemical binding]; other site 395019004255 ATP binding site [chemical binding]; other site 395019004256 lysophospholipid transporter LplT; Provisional; Region: PRK11195 395019004257 alanine racemase; Reviewed; Region: alr; PRK00053 395019004258 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 395019004259 active site 395019004260 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395019004261 substrate binding site [chemical binding]; other site 395019004262 catalytic residues [active] 395019004263 dimer interface [polypeptide binding]; other site 395019004264 DNA repair protein RadA; Provisional; Region: PRK11823 395019004265 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 395019004266 Walker A motif/ATP binding site; other site 395019004267 ATP binding site [chemical binding]; other site 395019004268 Walker B motif; other site 395019004269 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 395019004270 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 395019004271 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 395019004272 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395019004273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019004274 Walker A/P-loop; other site 395019004275 ATP binding site [chemical binding]; other site 395019004276 Q-loop/lid; other site 395019004277 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395019004278 ABC transporter signature motif; other site 395019004279 Walker B; other site 395019004280 D-loop; other site 395019004281 ABC transporter; Region: ABC_tran_2; pfam12848 395019004282 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395019004283 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 395019004284 catalytic residues [active] 395019004285 dimer interface [polypeptide binding]; other site 395019004286 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 395019004287 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 395019004288 putative active site [active] 395019004289 catalytic site [active] 395019004290 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 395019004291 putative active site [active] 395019004292 catalytic site [active] 395019004293 HemK family putative methylases; Region: hemK_fam; TIGR00536 395019004294 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 395019004295 S-adenosylmethionine binding site [chemical binding]; other site 395019004296 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 395019004297 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 395019004298 metal binding site [ion binding]; metal-binding site 395019004299 dimer interface [polypeptide binding]; other site 395019004300 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 395019004301 ArsC family; Region: ArsC; pfam03960 395019004302 putative catalytic residues [active] 395019004303 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 395019004304 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 395019004305 trimer interface [polypeptide binding]; other site 395019004306 active site 395019004307 substrate binding site [chemical binding]; other site 395019004308 CoA binding site [chemical binding]; other site 395019004309 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 395019004310 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 395019004311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019004312 homodimer interface [polypeptide binding]; other site 395019004313 catalytic residue [active] 395019004314 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395019004315 EamA-like transporter family; Region: EamA; cl17759 395019004316 EamA-like transporter family; Region: EamA; pfam00892 395019004317 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395019004318 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 395019004319 Walker A/P-loop; other site 395019004320 ATP binding site [chemical binding]; other site 395019004321 Q-loop/lid; other site 395019004322 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 395019004323 Q-loop/lid; other site 395019004324 ABC transporter signature motif; other site 395019004325 Walker B; other site 395019004326 D-loop; other site 395019004327 H-loop/switch region; other site 395019004328 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 395019004329 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 395019004330 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 395019004331 nucleotide binding pocket [chemical binding]; other site 395019004332 K-X-D-G motif; other site 395019004333 catalytic site [active] 395019004334 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 395019004335 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 395019004336 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 395019004337 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 395019004338 Dimer interface [polypeptide binding]; other site 395019004339 BRCT sequence motif; other site 395019004340 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 395019004341 active site 395019004342 catalytic residues [active] 395019004343 metal binding site [ion binding]; metal-binding site 395019004344 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395019004345 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 395019004346 RNA binding surface [nucleotide binding]; other site 395019004347 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 395019004348 active site 395019004349 PII uridylyl-transferase; Provisional; Region: PRK03059 395019004350 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395019004351 metal binding triad; other site 395019004352 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395019004353 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395019004354 Zn2+ binding site [ion binding]; other site 395019004355 Mg2+ binding site [ion binding]; other site 395019004356 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 395019004357 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 395019004358 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 395019004359 active site 395019004360 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 395019004361 rRNA interaction site [nucleotide binding]; other site 395019004362 S8 interaction site; other site 395019004363 putative laminin-1 binding site; other site 395019004364 elongation factor Ts; Provisional; Region: tsf; PRK09377 395019004365 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 395019004366 Elongation factor TS; Region: EF_TS; pfam00889 395019004367 Elongation factor TS; Region: EF_TS; pfam00889 395019004368 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 395019004369 putative nucleotide binding site [chemical binding]; other site 395019004370 uridine monophosphate binding site [chemical binding]; other site 395019004371 homohexameric interface [polypeptide binding]; other site 395019004372 ribosome recycling factor; Reviewed; Region: frr; PRK00083 395019004373 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 395019004374 hinge region; other site 395019004375 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 395019004376 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 395019004377 catalytic residue [active] 395019004378 putative FPP diphosphate binding site; other site 395019004379 putative FPP binding hydrophobic cleft; other site 395019004380 dimer interface [polypeptide binding]; other site 395019004381 putative IPP diphosphate binding site; other site 395019004382 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 395019004383 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 395019004384 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 395019004385 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 395019004386 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 395019004387 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 395019004388 zinc metallopeptidase RseP; Provisional; Region: PRK10779 395019004389 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 395019004390 active site 395019004391 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 395019004392 protein binding site [polypeptide binding]; other site 395019004393 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 395019004394 putative substrate binding region [chemical binding]; other site 395019004395 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 395019004396 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395019004397 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395019004398 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395019004399 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395019004400 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395019004401 Surface antigen; Region: Bac_surface_Ag; pfam01103 395019004402 periplasmic chaperone; Provisional; Region: PRK10780 395019004403 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 395019004404 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 395019004405 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 395019004406 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 395019004407 trimer interface [polypeptide binding]; other site 395019004408 active site 395019004409 UDP-GlcNAc binding site [chemical binding]; other site 395019004410 lipid binding site [chemical binding]; lipid-binding site 395019004411 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 395019004412 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 395019004413 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 395019004414 active site 395019004415 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 395019004416 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 395019004417 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 395019004418 RNA/DNA hybrid binding site [nucleotide binding]; other site 395019004419 active site 395019004420 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 395019004421 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 395019004422 PEP synthetase regulatory protein; Provisional; Region: PRK05339 395019004423 phosphoenolpyruvate synthase; Validated; Region: PRK06464 395019004424 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 395019004425 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 395019004426 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 395019004427 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 395019004428 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 395019004429 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 395019004430 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 395019004431 SmpB-tmRNA interface; other site 395019004432 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 395019004433 putative coenzyme Q binding site [chemical binding]; other site 395019004434 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 395019004435 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 395019004436 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 395019004437 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 395019004438 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 395019004439 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 395019004440 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 395019004441 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 395019004442 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 395019004443 active site 395019004444 GMP synthase; Reviewed; Region: guaA; PRK00074 395019004445 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 395019004446 AMP/PPi binding site [chemical binding]; other site 395019004447 candidate oxyanion hole; other site 395019004448 catalytic triad [active] 395019004449 potential glutamine specificity residues [chemical binding]; other site 395019004450 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 395019004451 ATP Binding subdomain [chemical binding]; other site 395019004452 Ligand Binding sites [chemical binding]; other site 395019004453 Dimerization subdomain; other site 395019004454 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 395019004455 salt bridge; other site 395019004456 non-specific DNA binding site [nucleotide binding]; other site 395019004457 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019004458 sequence-specific DNA binding site [nucleotide binding]; other site 395019004459 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 395019004460 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395019004461 putative NAD(P) binding site [chemical binding]; other site 395019004462 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 395019004463 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 395019004464 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 395019004465 nudix motif; other site 395019004466 Protein of unknown function (DUF971); Region: DUF971; pfam06155 395019004467 HEAT repeats; Region: HEAT_2; pfam13646 395019004468 HEAT repeats; Region: HEAT_2; pfam13646 395019004469 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395019004470 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395019004471 Walker A/P-loop; other site 395019004472 ATP binding site [chemical binding]; other site 395019004473 Q-loop/lid; other site 395019004474 ABC transporter signature motif; other site 395019004475 Walker B; other site 395019004476 D-loop; other site 395019004477 H-loop/switch region; other site 395019004478 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395019004479 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 395019004480 dimer interface [polypeptide binding]; other site 395019004481 conserved gate region; other site 395019004482 putative PBP binding loops; other site 395019004483 ABC-ATPase subunit interface; other site 395019004484 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395019004485 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 395019004486 substrate binding pocket [chemical binding]; other site 395019004487 membrane-bound complex binding site; other site 395019004488 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 395019004489 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 395019004490 putative oxidoreductase; Provisional; Region: PRK08275 395019004491 L-aspartate oxidase; Provisional; Region: PRK06175 395019004492 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395019004493 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 395019004494 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019004495 DNA-binding site [nucleotide binding]; DNA binding site 395019004496 UTRA domain; Region: UTRA; pfam07702 395019004497 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019004498 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 395019004499 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 395019004500 nucleoside/Zn binding site; other site 395019004501 dimer interface [polypeptide binding]; other site 395019004502 catalytic motif [active] 395019004503 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 395019004504 dimer interface [polypeptide binding]; other site 395019004505 catalytic triad [active] 395019004506 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395019004507 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019004508 DNA-binding site [nucleotide binding]; DNA binding site 395019004509 FCD domain; Region: FCD; pfam07729 395019004510 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 395019004511 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 395019004512 Na binding site [ion binding]; other site 395019004513 putative substrate binding site [chemical binding]; other site 395019004514 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 395019004515 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 395019004516 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 395019004517 active site 395019004518 catalytic site [active] 395019004519 tetramer interface [polypeptide binding]; other site 395019004520 OHCU decarboxylase; Region: UHCUDC; TIGR03164 395019004521 allantoicase; Provisional; Region: PRK13257 395019004522 Allantoicase repeat; Region: Allantoicase; pfam03561 395019004523 Allantoicase repeat; Region: Allantoicase; pfam03561 395019004524 ureidoglycolate hydrolase; Provisional; Region: PRK03606 395019004525 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 395019004526 Predicted membrane protein [Function unknown]; Region: COG3748 395019004527 Protein of unknown function (DUF989); Region: DUF989; pfam06181 395019004528 Cytochrome c; Region: Cytochrom_C; pfam00034 395019004529 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 395019004530 active site 395019004531 homotetramer interface [polypeptide binding]; other site 395019004532 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 395019004533 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 395019004534 active site 395019004535 putative substrate binding pocket [chemical binding]; other site 395019004536 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019004537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019004538 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 395019004539 putative substrate binding pocket [chemical binding]; other site 395019004540 putative dimerization interface [polypeptide binding]; other site 395019004541 Dodecin; Region: Dodecin; pfam07311 395019004542 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395019004543 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395019004544 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 395019004545 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 395019004546 Tetratricopeptide repeat; Region: TPR_16; pfam13432 395019004547 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 395019004548 TPR motif; other site 395019004549 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 395019004550 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 395019004551 Transglycosylase; Region: Transgly; pfam00912 395019004552 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 395019004553 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019004554 Coenzyme A binding pocket [chemical binding]; other site 395019004555 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 395019004556 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 395019004557 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 395019004558 tetramer interface [polypeptide binding]; other site 395019004559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019004560 catalytic residue [active] 395019004561 acetylornithine deacetylase; Provisional; Region: PRK07522 395019004562 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 395019004563 metal binding site [ion binding]; metal-binding site 395019004564 putative dimer interface [polypeptide binding]; other site 395019004565 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 395019004566 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 395019004567 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 395019004568 ATP binding site [chemical binding]; other site 395019004569 putative Mg++ binding site [ion binding]; other site 395019004570 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 395019004571 nucleotide binding region [chemical binding]; other site 395019004572 ATP-binding site [chemical binding]; other site 395019004573 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 395019004574 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 395019004575 substrate binding site; other site 395019004576 dimer interface; other site 395019004577 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 395019004578 homotrimer interaction site [polypeptide binding]; other site 395019004579 zinc binding site [ion binding]; other site 395019004580 CDP-binding sites; other site 395019004581 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 395019004582 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 395019004583 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 395019004584 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 395019004585 dimer interface [polypeptide binding]; other site 395019004586 decamer (pentamer of dimers) interface [polypeptide binding]; other site 395019004587 catalytic triad [active] 395019004588 peroxidatic and resolving cysteines [active] 395019004589 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 395019004590 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 395019004591 dimer interface [polypeptide binding]; other site 395019004592 phosphorylation site [posttranslational modification] 395019004593 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 395019004594 ATP binding site [chemical binding]; other site 395019004595 Mg2+ binding site [ion binding]; other site 395019004596 G-X-G motif; other site 395019004597 osmolarity response regulator; Provisional; Region: ompR; PRK09468 395019004598 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 395019004599 active site 395019004600 phosphorylation site [posttranslational modification] 395019004601 intermolecular recognition site; other site 395019004602 dimerization interface [polypeptide binding]; other site 395019004603 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 395019004604 DNA binding site [nucleotide binding] 395019004605 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 395019004606 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 395019004607 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 395019004608 active site lid residues [active] 395019004609 substrate binding pocket [chemical binding]; other site 395019004610 catalytic residues [active] 395019004611 substrate-Mg2+ binding site; other site 395019004612 aspartate-rich region 1; other site 395019004613 aspartate-rich region 2; other site 395019004614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019004615 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019004616 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019004617 putative transposase OrfB; Reviewed; Region: PHA02517 395019004618 HTH-like domain; Region: HTH_21; pfam13276 395019004619 Integrase core domain; Region: rve; pfam00665 395019004620 Integrase core domain; Region: rve_2; pfam13333 395019004621 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 395019004622 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 395019004623 active site 395019004624 Zn binding site [ion binding]; other site 395019004625 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019004626 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019004627 trimer interface [polypeptide binding]; other site 395019004628 eyelet of channel; other site 395019004629 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019004630 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 395019004631 dimerization interface [polypeptide binding]; other site 395019004632 DNA binding residues [nucleotide binding] 395019004633 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 395019004634 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 395019004635 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 395019004636 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019004637 MarR family; Region: MarR_2; pfam12802 395019004638 MarR family; Region: MarR_2; cl17246 395019004639 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 395019004640 trigger factor; Provisional; Region: tig; PRK01490 395019004641 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 395019004642 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 395019004643 Clp protease; Region: CLP_protease; pfam00574 395019004644 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 395019004645 oligomer interface [polypeptide binding]; other site 395019004646 active site residues [active] 395019004647 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 395019004648 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 395019004649 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 395019004650 Walker A motif; other site 395019004651 ATP binding site [chemical binding]; other site 395019004652 Walker B motif; other site 395019004653 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 395019004654 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 395019004655 Found in ATP-dependent protease La (LON); Region: LON; smart00464 395019004656 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 395019004657 Walker A motif; other site 395019004658 ATP binding site [chemical binding]; other site 395019004659 Walker B motif; other site 395019004660 arginine finger; other site 395019004661 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 395019004662 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019004663 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019004664 trimer interface [polypeptide binding]; other site 395019004665 eyelet of channel; other site 395019004666 benzoate transport; Region: 2A0115; TIGR00895 395019004667 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 395019004668 putative substrate translocation pore; other site 395019004669 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 395019004670 putative substrate translocation pore; other site 395019004671 SurA N-terminal domain; Region: SurA_N_3; cl07813 395019004672 periplasmic folding chaperone; Provisional; Region: PRK10788 395019004673 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 395019004674 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 395019004675 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 395019004676 active site 395019004677 catalytic triad [active] 395019004678 oxyanion hole [active] 395019004679 switch loop; other site 395019004680 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 395019004681 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395019004682 Walker A/P-loop; other site 395019004683 ATP binding site [chemical binding]; other site 395019004684 Q-loop/lid; other site 395019004685 ABC transporter signature motif; other site 395019004686 Walker B; other site 395019004687 D-loop; other site 395019004688 H-loop/switch region; other site 395019004689 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 395019004690 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 395019004691 active site 395019004692 dimer interface [polypeptide binding]; other site 395019004693 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 395019004694 dimer interface [polypeptide binding]; other site 395019004695 active site 395019004696 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 395019004697 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 395019004698 putative substrate binding site [chemical binding]; other site 395019004699 putative ATP binding site [chemical binding]; other site 395019004700 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 395019004701 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395019004702 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 395019004703 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 395019004704 dimerization interface [polypeptide binding]; other site 395019004705 ATP binding site [chemical binding]; other site 395019004706 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 395019004707 dimerization interface [polypeptide binding]; other site 395019004708 ATP binding site [chemical binding]; other site 395019004709 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 395019004710 putative active site [active] 395019004711 catalytic triad [active] 395019004712 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019004713 Coenzyme A binding pocket [chemical binding]; other site 395019004714 SurA N-terminal domain; Region: SurA_N_3; cl07813 395019004715 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 395019004716 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 395019004717 BolA-like protein; Region: BolA; pfam01722 395019004718 intracellular septation protein A; Reviewed; Region: PRK00259 395019004719 methionine sulfoxide reductase B; Provisional; Region: PRK00222 395019004720 SelR domain; Region: SelR; pfam01641 395019004721 hypothetical protein; Validated; Region: PRK00029 395019004722 Uncharacterized conserved protein [Function unknown]; Region: COG0397 395019004723 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 395019004724 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 395019004725 dimer interface [polypeptide binding]; other site 395019004726 acyl-activating enzyme (AAE) consensus motif; other site 395019004727 putative active site [active] 395019004728 AMP binding site [chemical binding]; other site 395019004729 putative CoA binding site [chemical binding]; other site 395019004730 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 395019004731 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 395019004732 substrate binding site [chemical binding]; other site 395019004733 oxyanion hole (OAH) forming residues; other site 395019004734 trimer interface [polypeptide binding]; other site 395019004735 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395019004736 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395019004737 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395019004738 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 395019004739 Isochorismatase family; Region: Isochorismatase; pfam00857 395019004740 catalytic triad [active] 395019004741 metal binding site [ion binding]; metal-binding site 395019004742 conserved cis-peptide bond; other site 395019004743 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 395019004744 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 395019004745 dimer interface [polypeptide binding]; other site 395019004746 active site 395019004747 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019004748 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019004749 metal binding site [ion binding]; metal-binding site 395019004750 active site 395019004751 I-site; other site 395019004752 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 395019004753 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 395019004754 CoenzymeA binding site [chemical binding]; other site 395019004755 subunit interaction site [polypeptide binding]; other site 395019004756 PHB binding site; other site 395019004757 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 395019004758 Prostaglandin dehydrogenases; Region: PGDH; cd05288 395019004759 NAD(P) binding site [chemical binding]; other site 395019004760 substrate binding site [chemical binding]; other site 395019004761 dimer interface [polypeptide binding]; other site 395019004762 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 395019004763 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395019004764 substrate binding pocket [chemical binding]; other site 395019004765 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019004766 Coenzyme A binding pocket [chemical binding]; other site 395019004767 NRDE protein; Region: NRDE; cl01315 395019004768 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 395019004769 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 395019004770 YceG-like family; Region: YceG; pfam02618 395019004771 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 395019004772 dimerization interface [polypeptide binding]; other site 395019004773 thymidylate kinase; Validated; Region: tmk; PRK00698 395019004774 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 395019004775 TMP-binding site; other site 395019004776 ATP-binding site [chemical binding]; other site 395019004777 DNA polymerase III subunit delta'; Validated; Region: PRK06964 395019004778 DNA polymerase III subunit delta'; Validated; Region: PRK08485 395019004779 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 395019004780 active site 395019004781 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395019004782 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 395019004783 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395019004784 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 395019004785 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395019004786 Predicted ATPase [General function prediction only]; Region: COG4637 395019004787 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019004788 Walker A/P-loop; other site 395019004789 ATP binding site [chemical binding]; other site 395019004790 Q-loop/lid; other site 395019004791 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 395019004792 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395019004793 putative ADP-binding pocket [chemical binding]; other site 395019004794 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 395019004795 psiF repeat; Region: PsiF_repeat; pfam07769 395019004796 psiF repeat; Region: PsiF_repeat; pfam07769 395019004797 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 395019004798 active site 395019004799 homotetramer interface [polypeptide binding]; other site 395019004800 homodimer interface [polypeptide binding]; other site 395019004801 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 395019004802 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395019004803 tartronate semialdehyde reductase; Provisional; Region: PRK15059 395019004804 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395019004805 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 395019004806 glyoxylate carboligase; Provisional; Region: PRK11269 395019004807 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395019004808 PYR/PP interface [polypeptide binding]; other site 395019004809 dimer interface [polypeptide binding]; other site 395019004810 TPP binding site [chemical binding]; other site 395019004811 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395019004812 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 395019004813 TPP-binding site [chemical binding]; other site 395019004814 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019004815 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019004816 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 395019004817 putative effector binding pocket; other site 395019004818 dimerization interface [polypeptide binding]; other site 395019004819 RNA polymerase sigma factor; Provisional; Region: PRK12533 395019004820 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019004821 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 395019004822 DNA binding residues [nucleotide binding] 395019004823 Putative zinc-finger; Region: zf-HC2; pfam13490 395019004824 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 395019004825 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 395019004826 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 395019004827 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 395019004828 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 395019004829 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 395019004830 replicative DNA helicase; Provisional; Region: PRK07004 395019004831 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 395019004832 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 395019004833 Walker A motif; other site 395019004834 ATP binding site [chemical binding]; other site 395019004835 Walker B motif; other site 395019004836 DNA binding loops [nucleotide binding] 395019004837 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 395019004838 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 395019004839 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 395019004840 NlpC/P60 family; Region: NLPC_P60; pfam00877 395019004841 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 395019004842 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 395019004843 putative active site [active] 395019004844 PhoH-like protein; Region: PhoH; pfam02562 395019004845 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 395019004846 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019004847 catalytic triad [active] 395019004848 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 395019004849 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 395019004850 putative active site [active] 395019004851 putative catalytic site [active] 395019004852 putative Zn binding site [ion binding]; other site 395019004853 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 395019004854 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 395019004855 NAD binding site [chemical binding]; other site 395019004856 substrate binding site [chemical binding]; other site 395019004857 active site 395019004858 putative formyltransferase; Provisional; Region: PRK06988 395019004859 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 395019004860 active site 395019004861 substrate binding site [chemical binding]; other site 395019004862 cosubstrate binding site; other site 395019004863 catalytic site [active] 395019004864 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 395019004865 active site 395019004866 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 395019004867 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 395019004868 Ligand binding site; other site 395019004869 Putative Catalytic site; other site 395019004870 DXD motif; other site 395019004871 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 395019004872 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 395019004873 inhibitor-cofactor binding pocket; inhibition site 395019004874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019004875 catalytic residue [active] 395019004876 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 395019004877 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395019004878 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 395019004879 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 395019004880 aminotransferase AlaT; Validated; Region: PRK09265 395019004881 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 395019004882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019004883 homodimer interface [polypeptide binding]; other site 395019004884 catalytic residue [active] 395019004885 homoserine dehydrogenase; Provisional; Region: PRK06349 395019004886 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 395019004887 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 395019004888 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 395019004889 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 395019004890 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 395019004891 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019004892 catalytic residue [active] 395019004893 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 395019004894 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 395019004895 dimer interface [polypeptide binding]; other site 395019004896 putative functional site; other site 395019004897 putative MPT binding site; other site 395019004898 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 395019004899 MoaE interaction surface [polypeptide binding]; other site 395019004900 MoeB interaction surface [polypeptide binding]; other site 395019004901 thiocarboxylated glycine; other site 395019004902 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 395019004903 MoaE homodimer interface [polypeptide binding]; other site 395019004904 MoaD interaction [polypeptide binding]; other site 395019004905 active site residues [active] 395019004906 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 395019004907 apolar tunnel; other site 395019004908 heme binding site [chemical binding]; other site 395019004909 dimerization interface [polypeptide binding]; other site 395019004910 Transcriptional regulator; Region: Rrf2; cl17282 395019004911 Rrf2 family protein; Region: rrf2_super; TIGR00738 395019004912 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 395019004913 Clp amino terminal domain; Region: Clp_N; pfam02861 395019004914 Clp amino terminal domain; Region: Clp_N; pfam02861 395019004915 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 395019004916 Walker A motif; other site 395019004917 ATP binding site [chemical binding]; other site 395019004918 Walker B motif; other site 395019004919 arginine finger; other site 395019004920 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 395019004921 Walker A motif; other site 395019004922 ATP binding site [chemical binding]; other site 395019004923 Walker B motif; other site 395019004924 arginine finger; other site 395019004925 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 395019004926 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 395019004927 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 395019004928 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 395019004929 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 395019004930 DNA binding residues [nucleotide binding] 395019004931 putative dimer interface [polypeptide binding]; other site 395019004932 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 395019004933 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 395019004934 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 395019004935 Walker A motif; other site 395019004936 ATP binding site [chemical binding]; other site 395019004937 Walker B motif; other site 395019004938 arginine finger; other site 395019004939 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395019004940 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 395019004941 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395019004942 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019004943 NAD(P) binding site [chemical binding]; other site 395019004944 active site 395019004945 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 395019004946 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 395019004947 tetramer interface [polypeptide binding]; other site 395019004948 TPP-binding site [chemical binding]; other site 395019004949 heterodimer interface [polypeptide binding]; other site 395019004950 phosphorylation loop region [posttranslational modification] 395019004951 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 395019004952 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 395019004953 alpha subunit interface [polypeptide binding]; other site 395019004954 TPP binding site [chemical binding]; other site 395019004955 heterodimer interface [polypeptide binding]; other site 395019004956 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395019004957 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 395019004958 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 395019004959 E3 interaction surface; other site 395019004960 lipoyl attachment site [posttranslational modification]; other site 395019004961 lipoyl synthase; Provisional; Region: PRK12928 395019004962 multidrug efflux protein; Reviewed; Region: PRK01766 395019004963 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 395019004964 cation binding site [ion binding]; other site 395019004965 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 395019004966 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 395019004967 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 395019004968 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 395019004969 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395019004970 putative substrate translocation pore; other site 395019004971 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 395019004972 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395019004973 DNA binding residues [nucleotide binding] 395019004974 transcription termination factor Rho; Provisional; Region: rho; PRK09376 395019004975 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 395019004976 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 395019004977 RNA binding site [nucleotide binding]; other site 395019004978 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 395019004979 multimer interface [polypeptide binding]; other site 395019004980 Walker A motif; other site 395019004981 ATP binding site [chemical binding]; other site 395019004982 Walker B motif; other site 395019004983 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 395019004984 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019004985 catalytic residues [active] 395019004986 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 395019004987 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 395019004988 Walker A motif; other site 395019004989 ATP binding site [chemical binding]; other site 395019004990 Walker B motif; other site 395019004991 arginine finger; other site 395019004992 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 395019004993 hypothetical protein; Validated; Region: PRK00153 395019004994 recombination protein RecR; Reviewed; Region: recR; PRK00076 395019004995 RecR protein; Region: RecR; pfam02132 395019004996 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 395019004997 putative active site [active] 395019004998 putative metal-binding site [ion binding]; other site 395019004999 tetramer interface [polypeptide binding]; other site 395019005000 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395019005001 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395019005002 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 395019005003 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 395019005004 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 395019005005 S-adenosylmethionine binding site [chemical binding]; other site 395019005006 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395019005007 Peptidase family M23; Region: Peptidase_M23; pfam01551 395019005008 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 395019005009 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395019005010 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019005011 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 395019005012 DNA binding residues [nucleotide binding] 395019005013 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 395019005014 active site 395019005015 catalytic site [active] 395019005016 substrate binding site [chemical binding]; other site 395019005017 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 395019005018 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395019005019 putative catalytic site [active] 395019005020 putative metal binding site [ion binding]; other site 395019005021 putative phosphate binding site [ion binding]; other site 395019005022 putative catalytic site [active] 395019005023 putative phosphate binding site [ion binding]; other site 395019005024 putative metal binding site [ion binding]; other site 395019005025 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 395019005026 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 395019005027 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019005028 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019005029 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019005030 HTH-like domain; Region: HTH_21; pfam13276 395019005031 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395019005032 Integrase core domain; Region: rve; pfam00665 395019005033 Integrase core domain; Region: rve_2; pfam13333 395019005034 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 395019005035 YccA-like proteins; Region: YccA_like; cd10433 395019005036 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 395019005037 active site 395019005038 multimer interface [polypeptide binding]; other site 395019005039 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 395019005040 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 395019005041 FeS/SAM binding site; other site 395019005042 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 395019005043 non-specific DNA binding site [nucleotide binding]; other site 395019005044 salt bridge; other site 395019005045 sequence-specific DNA binding site [nucleotide binding]; other site 395019005046 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 395019005047 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 395019005048 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 395019005049 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 395019005050 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 395019005051 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 395019005052 dimer interface [polypeptide binding]; other site 395019005053 motif 1; other site 395019005054 active site 395019005055 motif 2; other site 395019005056 motif 3; other site 395019005057 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 395019005058 anticodon binding site; other site 395019005059 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 395019005060 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 395019005061 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 395019005062 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 395019005063 Trp docking motif [polypeptide binding]; other site 395019005064 active site 395019005065 GTP-binding protein Der; Reviewed; Region: PRK00093 395019005066 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 395019005067 G1 box; other site 395019005068 GTP/Mg2+ binding site [chemical binding]; other site 395019005069 Switch I region; other site 395019005070 G2 box; other site 395019005071 Switch II region; other site 395019005072 G3 box; other site 395019005073 G4 box; other site 395019005074 G5 box; other site 395019005075 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 395019005076 G1 box; other site 395019005077 GTP/Mg2+ binding site [chemical binding]; other site 395019005078 Switch I region; other site 395019005079 G2 box; other site 395019005080 G3 box; other site 395019005081 Switch II region; other site 395019005082 G4 box; other site 395019005083 G5 box; other site 395019005084 bacterial Hfq-like; Region: Hfq; cd01716 395019005085 hexamer interface [polypeptide binding]; other site 395019005086 Sm1 motif; other site 395019005087 RNA binding site [nucleotide binding]; other site 395019005088 Sm2 motif; other site 395019005089 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 395019005090 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 395019005091 HflX GTPase family; Region: HflX; cd01878 395019005092 G1 box; other site 395019005093 GTP/Mg2+ binding site [chemical binding]; other site 395019005094 Switch I region; other site 395019005095 G2 box; other site 395019005096 G3 box; other site 395019005097 Switch II region; other site 395019005098 G4 box; other site 395019005099 G5 box; other site 395019005100 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 395019005101 HflK protein; Region: hflK; TIGR01933 395019005102 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 395019005103 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 395019005104 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 395019005105 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 395019005106 dimer interface [polypeptide binding]; other site 395019005107 motif 1; other site 395019005108 active site 395019005109 motif 2; other site 395019005110 motif 3; other site 395019005111 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 395019005112 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 395019005113 GDP-binding site [chemical binding]; other site 395019005114 ACT binding site; other site 395019005115 IMP binding site; other site 395019005116 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 395019005117 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395019005118 active site 395019005119 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 395019005120 potassium uptake protein; Region: kup; TIGR00794 395019005121 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 395019005122 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 395019005123 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 395019005124 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 395019005125 RNA binding site [nucleotide binding]; other site 395019005126 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 395019005127 DEAD_2; Region: DEAD_2; pfam06733 395019005128 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 395019005129 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 395019005130 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 395019005131 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 395019005132 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 395019005133 RNA binding surface [nucleotide binding]; other site 395019005134 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395019005135 active site 395019005136 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 395019005137 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 395019005138 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 395019005139 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 395019005140 putative acyltransferase; Provisional; Region: PRK05790 395019005141 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 395019005142 dimer interface [polypeptide binding]; other site 395019005143 active site 395019005144 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 395019005145 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 395019005146 NAD(P) binding site [chemical binding]; other site 395019005147 homotetramer interface [polypeptide binding]; other site 395019005148 homodimer interface [polypeptide binding]; other site 395019005149 active site 395019005150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 395019005151 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 395019005152 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 395019005153 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 395019005154 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 395019005155 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 395019005156 FeS/SAM binding site; other site 395019005157 TRAM domain; Region: TRAM; cl01282 395019005158 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 395019005159 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395019005160 substrate binding site [chemical binding]; other site 395019005161 ATP binding site [chemical binding]; other site 395019005162 cystathionine beta-lyase; Provisional; Region: PRK07050 395019005163 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 395019005164 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019005165 catalytic residue [active] 395019005166 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 395019005167 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 395019005168 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 395019005169 motif II; other site 395019005170 transcriptional activator TtdR; Provisional; Region: PRK09801 395019005171 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019005172 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 395019005173 putative effector binding pocket; other site 395019005174 dimerization interface [polypeptide binding]; other site 395019005175 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 395019005176 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 395019005177 putative NAD(P) binding site [chemical binding]; other site 395019005178 dimer interface [polypeptide binding]; other site 395019005179 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 395019005180 dimer interface [polypeptide binding]; other site 395019005181 putative inhibitory loop; other site 395019005182 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 395019005183 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 395019005184 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019005185 Walker A/P-loop; other site 395019005186 ATP binding site [chemical binding]; other site 395019005187 Q-loop/lid; other site 395019005188 ABC transporter signature motif; other site 395019005189 Walker B; other site 395019005190 D-loop; other site 395019005191 H-loop/switch region; other site 395019005192 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 395019005193 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 395019005194 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 395019005195 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395019005196 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395019005197 ABC transporter; Region: ABC_tran_2; pfam12848 395019005198 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395019005199 hypothetical protein; Provisional; Region: PRK11667 395019005200 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 395019005201 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 395019005202 putative NAD(P) binding site [chemical binding]; other site 395019005203 catalytic Zn binding site [ion binding]; other site 395019005204 structural Zn binding site [ion binding]; other site 395019005205 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019005206 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 395019005207 putative DNA binding site [nucleotide binding]; other site 395019005208 putative Zn2+ binding site [ion binding]; other site 395019005209 AsnC family; Region: AsnC_trans_reg; pfam01037 395019005210 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 395019005211 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019005212 NAD binding site [chemical binding]; other site 395019005213 catalytic residues [active] 395019005214 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 395019005215 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 395019005216 FMN binding site [chemical binding]; other site 395019005217 substrate binding site [chemical binding]; other site 395019005218 putative catalytic residue [active] 395019005219 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 395019005220 Predicted Fe-S protein [General function prediction only]; Region: COG3313 395019005221 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 395019005222 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395019005223 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 395019005224 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019005225 Walker A/P-loop; other site 395019005226 ATP binding site [chemical binding]; other site 395019005227 Q-loop/lid; other site 395019005228 ABC transporter signature motif; other site 395019005229 Walker B; other site 395019005230 D-loop; other site 395019005231 H-loop/switch region; other site 395019005232 TOBE domain; Region: TOBE_2; pfam08402 395019005233 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 395019005234 dimer interface [polypeptide binding]; other site 395019005235 conserved gate region; other site 395019005236 putative PBP binding loops; other site 395019005237 ABC-ATPase subunit interface; other site 395019005238 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395019005239 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 395019005240 dimer interface [polypeptide binding]; other site 395019005241 conserved gate region; other site 395019005242 putative PBP binding loops; other site 395019005243 ABC-ATPase subunit interface; other site 395019005244 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395019005245 Putative phosphatase (DUF442); Region: DUF442; cl17385 395019005246 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 395019005247 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 395019005248 PAS fold; Region: PAS_4; pfam08448 395019005249 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 395019005250 putative active site [active] 395019005251 heme pocket [chemical binding]; other site 395019005252 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 395019005253 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395019005254 Walker A motif; other site 395019005255 ATP binding site [chemical binding]; other site 395019005256 Walker B motif; other site 395019005257 arginine finger; other site 395019005258 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 395019005259 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395019005260 DNA binding residues [nucleotide binding] 395019005261 putative dimer interface [polypeptide binding]; other site 395019005262 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 395019005263 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 395019005264 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019005265 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395019005266 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395019005267 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019005268 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019005269 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019005270 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019005271 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 395019005272 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 395019005273 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 395019005274 Cl- selectivity filter; other site 395019005275 Cl- binding residues [ion binding]; other site 395019005276 pore gating glutamate residue; other site 395019005277 dimer interface [polypeptide binding]; other site 395019005278 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 395019005279 Predicted membrane protein [Function unknown]; Region: COG2855 395019005280 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019005281 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 395019005282 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 395019005283 putative dimerization interface [polypeptide binding]; other site 395019005284 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395019005285 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 395019005286 substrate binding site [chemical binding]; other site 395019005287 ATP binding site [chemical binding]; other site 395019005288 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 395019005289 D-galactonate transporter; Region: 2A0114; TIGR00893 395019005290 putative substrate translocation pore; other site 395019005291 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 395019005292 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 395019005293 dimerization interface [polypeptide binding]; other site 395019005294 ligand binding site [chemical binding]; other site 395019005295 NADP binding site [chemical binding]; other site 395019005296 catalytic site [active] 395019005297 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395019005298 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395019005299 DNA binding site [nucleotide binding] 395019005300 domain linker motif; other site 395019005301 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 395019005302 putative ligand binding site [chemical binding]; other site 395019005303 putative dimerization interface [polypeptide binding]; other site 395019005304 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395019005305 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 395019005306 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 395019005307 PGDYG protein; Region: PGDYG; pfam14083 395019005308 LTXXQ motif family protein; Region: LTXXQ; pfam07813 395019005309 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 395019005310 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 395019005311 AsnC family; Region: AsnC_trans_reg; pfam01037 395019005312 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 395019005313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019005314 AAA domain; Region: AAA_33; pfam13671 395019005315 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 395019005316 active site 395019005317 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 395019005318 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 395019005319 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 395019005320 oligomer interface [polypeptide binding]; other site 395019005321 metal binding site [ion binding]; metal-binding site 395019005322 metal binding site [ion binding]; metal-binding site 395019005323 putative Cl binding site [ion binding]; other site 395019005324 basic sphincter; other site 395019005325 hydrophobic gate; other site 395019005326 periplasmic entrance; other site 395019005327 YciI-like protein; Reviewed; Region: PRK12866 395019005328 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 395019005329 putative deacylase active site [active] 395019005330 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 395019005331 homotrimer interaction site [polypeptide binding]; other site 395019005332 putative active site [active] 395019005333 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 395019005334 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019005335 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019005336 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019005337 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 395019005338 putative Zn2+ binding site [ion binding]; other site 395019005339 putative DNA binding site [nucleotide binding]; other site 395019005340 Uncharacterized conserved protein [Function unknown]; Region: COG3791 395019005341 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 395019005342 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 395019005343 FMN binding site [chemical binding]; other site 395019005344 substrate binding site [chemical binding]; other site 395019005345 putative catalytic residue [active] 395019005346 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 395019005347 benzoate transport; Region: 2A0115; TIGR00895 395019005348 putative substrate translocation pore; other site 395019005349 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 395019005350 putative substrate translocation pore; other site 395019005351 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019005352 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019005353 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 395019005354 putative dimerization interface [polypeptide binding]; other site 395019005355 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 395019005356 dimer interface [polypeptide binding]; other site 395019005357 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019005358 metal binding site [ion binding]; metal-binding site 395019005359 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 395019005360 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 395019005361 active site 395019005362 catalytic residues [active] 395019005363 metal binding site [ion binding]; metal-binding site 395019005364 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395019005365 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395019005366 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019005367 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395019005368 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 395019005369 dimer interface [polypeptide binding]; other site 395019005370 conserved gate region; other site 395019005371 putative PBP binding loops; other site 395019005372 ABC-ATPase subunit interface; other site 395019005373 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395019005374 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 395019005375 dimer interface [polypeptide binding]; other site 395019005376 conserved gate region; other site 395019005377 putative PBP binding loops; other site 395019005378 ABC-ATPase subunit interface; other site 395019005379 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395019005380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019005381 Walker A/P-loop; other site 395019005382 ATP binding site [chemical binding]; other site 395019005383 Q-loop/lid; other site 395019005384 ABC transporter signature motif; other site 395019005385 Walker B; other site 395019005386 D-loop; other site 395019005387 H-loop/switch region; other site 395019005388 TOBE domain; Region: TOBE; pfam03459 395019005389 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 395019005390 hypothetical protein; Provisional; Region: PRK11622 395019005391 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395019005392 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 395019005393 C-terminal domain interface [polypeptide binding]; other site 395019005394 GSH binding site (G-site) [chemical binding]; other site 395019005395 dimer interface [polypeptide binding]; other site 395019005396 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 395019005397 dimer interface [polypeptide binding]; other site 395019005398 N-terminal domain interface [polypeptide binding]; other site 395019005399 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 395019005400 active site 395019005401 SAM binding site [chemical binding]; other site 395019005402 homodimer interface [polypeptide binding]; other site 395019005403 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 395019005404 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 395019005405 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 395019005406 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 395019005407 active site 395019005408 putative homodimer interface [polypeptide binding]; other site 395019005409 SAM binding site [chemical binding]; other site 395019005410 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 395019005411 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 395019005412 precorrin-3B synthase; Region: CobG; TIGR02435 395019005413 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395019005414 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395019005415 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 395019005416 Precorrin-8X methylmutase; Region: CbiC; pfam02570 395019005417 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 395019005418 active site 395019005419 SAM binding site [chemical binding]; other site 395019005420 homodimer interface [polypeptide binding]; other site 395019005421 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 395019005422 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 395019005423 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 395019005424 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 395019005425 active site 395019005426 SAM binding site [chemical binding]; other site 395019005427 homodimer interface [polypeptide binding]; other site 395019005428 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 395019005429 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019005430 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019005431 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395019005432 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395019005433 active site 395019005434 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 395019005435 Citrate transporter; Region: CitMHS; pfam03600 395019005436 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395019005437 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395019005438 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 395019005439 nudix motif; other site 395019005440 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 395019005441 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 395019005442 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 395019005443 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 395019005444 Walker A motif; other site 395019005445 ATP binding site [chemical binding]; other site 395019005446 Walker B motif; other site 395019005447 arginine finger; other site 395019005448 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 395019005449 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395019005450 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 395019005451 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 395019005452 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 395019005453 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 395019005454 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 395019005455 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 395019005456 active site 395019005457 SAM binding site [chemical binding]; other site 395019005458 homodimer interface [polypeptide binding]; other site 395019005459 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 395019005460 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 395019005461 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 395019005462 homodimer interface [polypeptide binding]; other site 395019005463 Walker A motif; other site 395019005464 ATP binding site [chemical binding]; other site 395019005465 hydroxycobalamin binding site [chemical binding]; other site 395019005466 Walker B motif; other site 395019005467 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 395019005468 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 395019005469 catalytic triad [active] 395019005470 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395019005471 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395019005472 metal binding site [ion binding]; metal-binding site 395019005473 putative dimer interface [polypeptide binding]; other site 395019005474 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 395019005475 Predicted nucleotidyltransferase [General function prediction only]; Region: COG4849 395019005476 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 395019005477 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 395019005478 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 395019005479 catalytic site [active] 395019005480 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 395019005481 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 395019005482 N-terminal plug; other site 395019005483 ligand-binding site [chemical binding]; other site 395019005484 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 395019005485 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019005486 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 395019005487 Condensation domain; Region: Condensation; pfam00668 395019005488 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 395019005489 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 395019005490 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 395019005491 acyl-activating enzyme (AAE) consensus motif; other site 395019005492 AMP binding site [chemical binding]; other site 395019005493 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 395019005494 Condensation domain; Region: Condensation; pfam00668 395019005495 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 395019005496 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 395019005497 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 395019005498 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 395019005499 acyl-activating enzyme (AAE) consensus motif; other site 395019005500 AMP binding site [chemical binding]; other site 395019005501 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 395019005502 Condensation domain; Region: Condensation; pfam00668 395019005503 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 395019005504 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 395019005505 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395019005506 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 395019005507 acyl-activating enzyme (AAE) consensus motif; other site 395019005508 AMP binding site [chemical binding]; other site 395019005509 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 395019005510 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 395019005511 Condensation domain; Region: Condensation; pfam00668 395019005512 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 395019005513 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 395019005514 acyl-activating enzyme (AAE) consensus motif; other site 395019005515 AMP binding site [chemical binding]; other site 395019005516 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 395019005517 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 395019005518 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 395019005519 Walker A/P-loop; other site 395019005520 ATP binding site [chemical binding]; other site 395019005521 Q-loop/lid; other site 395019005522 ABC transporter signature motif; other site 395019005523 Walker B; other site 395019005524 D-loop; other site 395019005525 H-loop/switch region; other site 395019005526 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 395019005527 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 395019005528 siderophore binding site; other site 395019005529 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 395019005530 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 395019005531 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 395019005532 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 395019005533 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 395019005534 ABC-ATPase subunit interface; other site 395019005535 dimer interface [polypeptide binding]; other site 395019005536 putative PBP binding regions; other site 395019005537 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 395019005538 ABC-ATPase subunit interface; other site 395019005539 dimer interface [polypeptide binding]; other site 395019005540 putative PBP binding regions; other site 395019005541 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 395019005542 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395019005543 Walker A/P-loop; other site 395019005544 ATP binding site [chemical binding]; other site 395019005545 Q-loop/lid; other site 395019005546 ABC transporter signature motif; other site 395019005547 Walker B; other site 395019005548 D-loop; other site 395019005549 H-loop/switch region; other site 395019005550 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 395019005551 MbtH-like protein; Region: MbtH; cl01279 395019005552 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 395019005553 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019005554 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 395019005555 DNA binding residues [nucleotide binding] 395019005556 Fimbrial protein; Region: Fimbrial; pfam00419 395019005557 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 395019005558 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 395019005559 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 395019005560 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 395019005561 PapC N-terminal domain; Region: PapC_N; pfam13954 395019005562 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 395019005563 PapC C-terminal domain; Region: PapC_C; pfam13953 395019005564 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 395019005565 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 395019005566 multidrug efflux protein; Reviewed; Region: PRK09577 395019005567 Protein export membrane protein; Region: SecD_SecF; cl14618 395019005568 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 395019005569 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019005570 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019005571 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 395019005572 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019005573 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 395019005574 Peptidase family M23; Region: Peptidase_M23; pfam01551 395019005575 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 395019005576 dimer interface [polypeptide binding]; other site 395019005577 conserved gate region; other site 395019005578 putative PBP binding loops; other site 395019005579 ABC-ATPase subunit interface; other site 395019005580 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 395019005581 dimer interface [polypeptide binding]; other site 395019005582 conserved gate region; other site 395019005583 putative PBP binding loops; other site 395019005584 ABC-ATPase subunit interface; other site 395019005585 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395019005586 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 395019005587 substrate binding pocket [chemical binding]; other site 395019005588 membrane-bound complex binding site; other site 395019005589 hinge residues; other site 395019005590 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 395019005591 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 395019005592 putative substrate translocation pore; other site 395019005593 SpoVR family protein; Provisional; Region: PRK11767 395019005594 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 395019005595 hypothetical protein; Provisional; Region: PRK05325 395019005596 PrkA family serine protein kinase; Provisional; Region: PRK15455 395019005597 AAA ATPase domain; Region: AAA_16; pfam13191 395019005598 Walker A motif; other site 395019005599 ATP binding site [chemical binding]; other site 395019005600 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 395019005601 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 395019005602 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019005603 dimer interface [polypeptide binding]; other site 395019005604 putative CheW interface [polypeptide binding]; other site 395019005605 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395019005606 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 395019005607 substrate binding site [chemical binding]; other site 395019005608 dimer interface [polypeptide binding]; other site 395019005609 ATP binding site [chemical binding]; other site 395019005610 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395019005611 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395019005612 DNA binding site [nucleotide binding] 395019005613 domain linker motif; other site 395019005614 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395019005615 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019005616 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019005617 TM-ABC transporter signature motif; other site 395019005618 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395019005619 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 395019005620 Walker A/P-loop; other site 395019005621 ATP binding site [chemical binding]; other site 395019005622 Q-loop/lid; other site 395019005623 ABC transporter signature motif; other site 395019005624 Walker B; other site 395019005625 D-loop; other site 395019005626 H-loop/switch region; other site 395019005627 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 395019005628 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 395019005629 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395019005630 ligand binding site [chemical binding]; other site 395019005631 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 395019005632 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019005633 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 395019005634 substrate binding site [chemical binding]; other site 395019005635 dimerization interface [polypeptide binding]; other site 395019005636 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 395019005637 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 395019005638 Walker A/P-loop; other site 395019005639 ATP binding site [chemical binding]; other site 395019005640 Q-loop/lid; other site 395019005641 ABC transporter signature motif; other site 395019005642 Walker B; other site 395019005643 D-loop; other site 395019005644 H-loop/switch region; other site 395019005645 TOBE-like domain; Region: TOBE_3; pfam12857 395019005646 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395019005647 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 395019005648 dimer interface [polypeptide binding]; other site 395019005649 conserved gate region; other site 395019005650 putative PBP binding loops; other site 395019005651 ABC-ATPase subunit interface; other site 395019005652 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 395019005653 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 395019005654 dimer interface [polypeptide binding]; other site 395019005655 conserved gate region; other site 395019005656 putative PBP binding loops; other site 395019005657 ABC-ATPase subunit interface; other site 395019005658 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 395019005659 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395019005660 substrate binding pocket [chemical binding]; other site 395019005661 membrane-bound complex binding site; other site 395019005662 LexA repressor; Validated; Region: PRK00215 395019005663 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 395019005664 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 395019005665 Catalytic site [active] 395019005666 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 395019005667 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 395019005668 Ligand Binding Site [chemical binding]; other site 395019005669 nodulation ABC transporter NodI; Provisional; Region: PRK13537 395019005670 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 395019005671 Walker A/P-loop; other site 395019005672 ATP binding site [chemical binding]; other site 395019005673 Q-loop/lid; other site 395019005674 ABC transporter signature motif; other site 395019005675 Walker B; other site 395019005676 D-loop; other site 395019005677 H-loop/switch region; other site 395019005678 ABC-2 type transporter; Region: ABC2_membrane; cl17235 395019005679 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395019005680 Predicted permease; Region: DUF318; cl17795 395019005681 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 395019005682 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 395019005683 active site residue [active] 395019005684 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019005685 Walker A/P-loop; other site 395019005686 ATP binding site [chemical binding]; other site 395019005687 Q-loop/lid; other site 395019005688 ABC transporter signature motif; other site 395019005689 Walker B; other site 395019005690 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019005691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019005692 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 395019005693 dimerization interface [polypeptide binding]; other site 395019005694 hypothetical protein; Provisional; Region: PRK07079 395019005695 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 395019005696 metal binding site [ion binding]; metal-binding site 395019005697 putative dimer interface [polypeptide binding]; other site 395019005698 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019005699 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 395019005700 putative substrate translocation pore; other site 395019005701 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 395019005702 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395019005703 active site 395019005704 catalytic tetrad [active] 395019005705 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 395019005706 CoenzymeA binding site [chemical binding]; other site 395019005707 subunit interaction site [polypeptide binding]; other site 395019005708 PHB binding site; other site 395019005709 Predicted transcriptional regulators [Transcription]; Region: COG1733 395019005710 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 395019005711 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 395019005712 PLD-like domain; Region: PLDc_2; pfam13091 395019005713 putative active site [active] 395019005714 catalytic site [active] 395019005715 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 395019005716 putative dimer interface [polypeptide binding]; other site 395019005717 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019005718 Family of unknown function (DUF695); Region: DUF695; pfam05117 395019005719 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 395019005720 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395019005721 Integrase core domain; Region: rve; pfam00665 395019005722 Integrase core domain; Region: rve_3; pfam13683 395019005723 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 395019005724 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 395019005725 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 395019005726 FMN binding site [chemical binding]; other site 395019005727 active site 395019005728 catalytic residues [active] 395019005729 substrate binding site [chemical binding]; other site 395019005730 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 395019005731 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395019005732 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019005733 Walker A/P-loop; other site 395019005734 ATP binding site [chemical binding]; other site 395019005735 Q-loop/lid; other site 395019005736 ABC transporter signature motif; other site 395019005737 Walker B; other site 395019005738 D-loop; other site 395019005739 H-loop/switch region; other site 395019005740 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395019005741 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 395019005742 dimer interface [polypeptide binding]; other site 395019005743 conserved gate region; other site 395019005744 putative PBP binding loops; other site 395019005745 ABC-ATPase subunit interface; other site 395019005746 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 395019005747 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 395019005748 active site 395019005749 dimer interface [polypeptide binding]; other site 395019005750 non-prolyl cis peptide bond; other site 395019005751 insertion regions; other site 395019005752 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 395019005753 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 395019005754 substrate binding site [chemical binding]; other site 395019005755 oxyanion hole (OAH) forming residues; other site 395019005756 trimer interface [polypeptide binding]; other site 395019005757 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 395019005758 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 395019005759 hypothetical protein; Provisional; Region: PRK02487 395019005760 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 395019005761 nudix motif; other site 395019005762 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 395019005763 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 395019005764 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 395019005765 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 395019005766 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 395019005767 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 395019005768 quinone interaction residues [chemical binding]; other site 395019005769 active site 395019005770 catalytic residues [active] 395019005771 FMN binding site [chemical binding]; other site 395019005772 substrate binding site [chemical binding]; other site 395019005773 cystine transporter subunit; Provisional; Region: PRK11260 395019005774 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 395019005775 substrate binding pocket [chemical binding]; other site 395019005776 membrane-bound complex binding site; other site 395019005777 hinge residues; other site 395019005778 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395019005779 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 395019005780 dimer interface [polypeptide binding]; other site 395019005781 conserved gate region; other site 395019005782 putative PBP binding loops; other site 395019005783 ABC-ATPase subunit interface; other site 395019005784 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395019005785 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395019005786 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019005787 DNA-binding site [nucleotide binding]; DNA binding site 395019005788 FCD domain; Region: FCD; pfam07729 395019005789 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 395019005790 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395019005791 active site 395019005792 dimer interface [polypeptide binding]; other site 395019005793 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 395019005794 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 395019005795 amidase catalytic site [active] 395019005796 Zn binding residues [ion binding]; other site 395019005797 substrate binding site [chemical binding]; other site 395019005798 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 395019005799 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 395019005800 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 395019005801 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 395019005802 ribonuclease R; Region: RNase_R; TIGR02063 395019005803 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 395019005804 RNB domain; Region: RNB; pfam00773 395019005805 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 395019005806 RNA binding site [nucleotide binding]; other site 395019005807 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 395019005808 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 395019005809 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 395019005810 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 395019005811 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 395019005812 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395019005813 Helix-turn-helix domain; Region: HTH_18; pfam12833 395019005814 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019005815 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395019005816 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019005817 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395019005818 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019005819 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019005820 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 395019005821 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 395019005822 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395019005823 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 395019005824 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 395019005825 active site 395019005826 benzoate transport; Region: 2A0115; TIGR00895 395019005827 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 395019005828 putative substrate translocation pore; other site 395019005829 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019005830 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019005831 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 395019005832 dimerization interface [polypeptide binding]; other site 395019005833 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 395019005834 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 395019005835 phosphate binding site [ion binding]; other site 395019005836 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395019005837 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 395019005838 DNA binding residues [nucleotide binding] 395019005839 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 395019005840 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 395019005841 DNA binding residues [nucleotide binding] 395019005842 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395019005843 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395019005844 atypical (a) SDRs, subgroup 3; Region: SDR_a3; cd05229 395019005845 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395019005846 putative NAD(P) binding site [chemical binding]; other site 395019005847 putative active site [active] 395019005848 Ferritin-like domain; Region: Ferritin; pfam00210 395019005849 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 395019005850 dinuclear metal binding motif [ion binding]; other site 395019005851 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 395019005852 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 395019005853 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395019005854 Domain of unknown function DUF20; Region: UPF0118; pfam01594 395019005855 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 395019005856 high affinity sulphate transporter 1; Region: sulP; TIGR00815 395019005857 Sulfate transporter family; Region: Sulfate_transp; pfam00916 395019005858 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 395019005859 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 395019005860 putative active site [active] 395019005861 putative metal binding residues [ion binding]; other site 395019005862 signature motif; other site 395019005863 putative triphosphate binding site [ion binding]; other site 395019005864 CHAD domain; Region: CHAD; pfam05235 395019005865 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395019005866 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 395019005867 substrate binding pocket [chemical binding]; other site 395019005868 membrane-bound complex binding site; other site 395019005869 hinge residues; other site 395019005870 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 395019005871 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019005872 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 395019005873 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 395019005874 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 395019005875 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395019005876 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 395019005877 Walker A/P-loop; other site 395019005878 ATP binding site [chemical binding]; other site 395019005879 Q-loop/lid; other site 395019005880 ABC transporter signature motif; other site 395019005881 Walker B; other site 395019005882 D-loop; other site 395019005883 H-loop/switch region; other site 395019005884 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 395019005885 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019005886 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019005887 TM-ABC transporter signature motif; other site 395019005888 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 395019005889 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395019005890 putative ligand binding site [chemical binding]; other site 395019005891 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 395019005892 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395019005893 putative substrate binding site [chemical binding]; other site 395019005894 putative ATP binding site [chemical binding]; other site 395019005895 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 395019005896 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 395019005897 Sulfate transporter family; Region: Sulfate_transp; pfam00916 395019005898 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 395019005899 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 395019005900 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395019005901 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395019005902 putative sialic acid transporter; Region: 2A0112; TIGR00891 395019005903 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 395019005904 putative substrate translocation pore; other site 395019005905 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019005906 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019005907 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 395019005908 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 395019005909 acyl-activating enzyme (AAE) consensus motif; other site 395019005910 putative AMP binding site [chemical binding]; other site 395019005911 putative active site [active] 395019005912 putative CoA binding site [chemical binding]; other site 395019005913 bacterial Hfq-like; Region: Hfq; cd01716 395019005914 hexamer interface [polypeptide binding]; other site 395019005915 Sm1 motif; other site 395019005916 RNA binding site [nucleotide binding]; other site 395019005917 Sm2 motif; other site 395019005918 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 395019005919 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 395019005920 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 395019005921 Walker A motif; other site 395019005922 ATP binding site [chemical binding]; other site 395019005923 Walker B motif; other site 395019005924 arginine finger; other site 395019005925 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395019005926 Predicted membrane protein [Function unknown]; Region: COG4655 395019005927 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 395019005928 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 395019005929 TPR repeat; Region: TPR_11; pfam13414 395019005930 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 395019005931 binding surface 395019005932 TPR motif; other site 395019005933 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 395019005934 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395019005935 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 395019005936 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395019005937 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 395019005938 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 395019005939 ATP binding site [chemical binding]; other site 395019005940 Walker A motif; other site 395019005941 hexamer interface [polypeptide binding]; other site 395019005942 Walker B motif; other site 395019005943 AAA domain; Region: AAA_31; pfam13614 395019005944 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 395019005945 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 395019005946 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 395019005947 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 395019005948 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395019005949 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 395019005950 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 395019005951 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 395019005952 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 395019005953 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 395019005954 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 395019005955 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 395019005956 HTH-like domain; Region: HTH_21; pfam13276 395019005957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395019005958 Integrase core domain; Region: rve; pfam00665 395019005959 Integrase core domain; Region: rve_2; pfam13333 395019005960 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019005961 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019005962 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019005963 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 395019005964 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 395019005965 Predicted ATPase [General function prediction only]; Region: COG1485 395019005966 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019005967 Walker B; other site 395019005968 D-loop; other site 395019005969 H-loop/switch region; other site 395019005970 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 395019005971 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019005972 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395019005973 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 395019005974 E3 interaction surface; other site 395019005975 lipoyl attachment site [posttranslational modification]; other site 395019005976 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 395019005977 e3 binding domain; Region: E3_binding; pfam02817 395019005978 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 395019005979 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 395019005980 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 395019005981 TPP-binding site [chemical binding]; other site 395019005982 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 395019005983 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 395019005984 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 395019005985 G1 box; other site 395019005986 putative GEF interaction site [polypeptide binding]; other site 395019005987 GTP/Mg2+ binding site [chemical binding]; other site 395019005988 Switch I region; other site 395019005989 G2 box; other site 395019005990 G3 box; other site 395019005991 Switch II region; other site 395019005992 G4 box; other site 395019005993 G5 box; other site 395019005994 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 395019005995 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 395019005996 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019005997 MarR family; Region: MarR_2; cl17246 395019005998 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019005999 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 395019006000 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019006001 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 395019006002 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395019006003 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 395019006004 putative substrate translocation pore; other site 395019006005 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 395019006006 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 395019006007 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 395019006008 RNA binding site [nucleotide binding]; other site 395019006009 active site 395019006010 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 395019006011 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 395019006012 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 395019006013 translation initiation factor IF-2; Region: IF-2; TIGR00487 395019006014 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 395019006015 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 395019006016 G1 box; other site 395019006017 putative GEF interaction site [polypeptide binding]; other site 395019006018 GTP/Mg2+ binding site [chemical binding]; other site 395019006019 Switch I region; other site 395019006020 G2 box; other site 395019006021 G3 box; other site 395019006022 Switch II region; other site 395019006023 G4 box; other site 395019006024 G5 box; other site 395019006025 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 395019006026 Translation-initiation factor 2; Region: IF-2; pfam11987 395019006027 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 395019006028 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 395019006029 NusA N-terminal domain; Region: NusA_N; pfam08529 395019006030 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 395019006031 RNA binding site [nucleotide binding]; other site 395019006032 homodimer interface [polypeptide binding]; other site 395019006033 NusA-like KH domain; Region: KH_5; pfam13184 395019006034 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 395019006035 G-X-X-G motif; other site 395019006036 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 395019006037 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 395019006038 ribosome maturation protein RimP; Reviewed; Region: PRK00092 395019006039 Sm and related proteins; Region: Sm_like; cl00259 395019006040 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 395019006041 putative oligomer interface [polypeptide binding]; other site 395019006042 putative RNA binding site [nucleotide binding]; other site 395019006043 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 395019006044 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 395019006045 RNA binding surface [nucleotide binding]; other site 395019006046 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 395019006047 probable active site [active] 395019006048 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 395019006049 aspartate aminotransferase; Provisional; Region: PRK06108 395019006050 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 395019006051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019006052 homodimer interface [polypeptide binding]; other site 395019006053 catalytic residue [active] 395019006054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019006055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019006056 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 395019006057 putative dimerization interface [polypeptide binding]; other site 395019006058 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 395019006059 Uncharacterized conserved protein [Function unknown]; Region: COG1434 395019006060 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 395019006061 putative active site [active] 395019006062 Uncharacterized conserved protein [Function unknown]; Region: COG1359 395019006063 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 395019006064 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 395019006065 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 395019006066 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 395019006067 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395019006068 DNA binding residues [nucleotide binding] 395019006069 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 395019006070 IHF dimer interface [polypeptide binding]; other site 395019006071 IHF - DNA interface [nucleotide binding]; other site 395019006072 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 395019006073 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 395019006074 putative tRNA-binding site [nucleotide binding]; other site 395019006075 B3/4 domain; Region: B3_4; pfam03483 395019006076 tRNA synthetase B5 domain; Region: B5; smart00874 395019006077 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 395019006078 dimer interface [polypeptide binding]; other site 395019006079 motif 1; other site 395019006080 motif 3; other site 395019006081 motif 2; other site 395019006082 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 395019006083 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 395019006084 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 395019006085 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 395019006086 dimer interface [polypeptide binding]; other site 395019006087 motif 1; other site 395019006088 active site 395019006089 motif 2; other site 395019006090 motif 3; other site 395019006091 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 395019006092 23S rRNA binding site [nucleotide binding]; other site 395019006093 L21 binding site [polypeptide binding]; other site 395019006094 L13 binding site [polypeptide binding]; other site 395019006095 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 395019006096 translation initiation factor IF-3; Region: infC; TIGR00168 395019006097 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 395019006098 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 395019006099 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 395019006100 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 395019006101 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 395019006102 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 395019006103 active site 395019006104 dimer interface [polypeptide binding]; other site 395019006105 motif 1; other site 395019006106 motif 2; other site 395019006107 motif 3; other site 395019006108 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 395019006109 anticodon binding site; other site 395019006110 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 395019006111 HD domain; Region: HD_4; pfam13328 395019006112 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 395019006113 synthetase active site [active] 395019006114 NTP binding site [chemical binding]; other site 395019006115 metal binding site [ion binding]; metal-binding site 395019006116 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 395019006117 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 395019006118 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 395019006119 homotrimer interaction site [polypeptide binding]; other site 395019006120 putative active site [active] 395019006121 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395019006122 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019006123 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 395019006124 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 395019006125 PAS domain; Region: PAS_9; pfam13426 395019006126 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 395019006127 putative active site [active] 395019006128 heme pocket [chemical binding]; other site 395019006129 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 395019006130 DNA binding residues [nucleotide binding] 395019006131 dimerization interface [polypeptide binding]; other site 395019006132 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 395019006133 active site 395019006134 short chain dehydrogenase; Provisional; Region: PRK06949 395019006135 classical (c) SDRs; Region: SDR_c; cd05233 395019006136 NAD(P) binding site [chemical binding]; other site 395019006137 active site 395019006138 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 395019006139 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395019006140 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 395019006141 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 395019006142 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 395019006143 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 395019006144 Tetramer interface [polypeptide binding]; other site 395019006145 active site 395019006146 FMN-binding site [chemical binding]; other site 395019006147 H+ Antiporter protein; Region: 2A0121; TIGR00900 395019006148 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 395019006149 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395019006150 putative acyl-acceptor binding pocket; other site 395019006151 FOG: CBS domain [General function prediction only]; Region: COG0517 395019006152 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 395019006153 Protein of unknown function (DUF962); Region: DUF962; cl01879 395019006154 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 395019006155 integrase; Provisional; Region: int; PHA02601 395019006156 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 395019006157 active site 395019006158 DNA binding site [nucleotide binding] 395019006159 Int/Topo IB signature motif; other site 395019006160 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 395019006161 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 395019006162 catalytic residue [active] 395019006163 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 395019006164 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 395019006165 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 395019006166 Baseplate J-like protein; Region: Baseplate_J; cl01294 395019006167 Uncharacterized phage-encoded protein [Function unknown]; Region: COG3646 395019006168 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 395019006169 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 395019006170 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019006171 MULE transposase domain; Region: MULE; pfam10551 395019006172 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 395019006173 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 395019006174 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 395019006175 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 395019006176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 395019006177 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 395019006178 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 395019006179 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395019006180 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 395019006181 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 395019006182 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 395019006183 Phage terminase large subunit; Region: Terminase_3; cl12054 395019006184 Terminase small subunit; Region: Terminase_2; pfam03592 395019006185 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 395019006186 Protein of unknown function (DUF1376); Region: DUF1376; pfam07120 395019006187 HNH endonuclease; Region: HNH_3; pfam13392 395019006188 AP2 domain; Region: AP2; pfam00847 395019006189 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 395019006190 non-specific DNA binding site [nucleotide binding]; other site 395019006191 Predicted transcriptional regulator [Transcription]; Region: COG2932 395019006192 salt bridge; other site 395019006193 sequence-specific DNA binding site [nucleotide binding]; other site 395019006194 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 395019006195 Catalytic site [active] 395019006196 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 395019006197 RecT family; Region: RecT; cl04285 395019006198 Recombination endonuclease VII; Region: Endonuclease_7; pfam02945 395019006199 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 395019006200 Protein of unknown function (DUF551); Region: DUF551; pfam04448 395019006201 Helix-turn-helix domain; Region: HTH_17; pfam12728 395019006202 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 395019006203 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019006204 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 395019006205 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395019006206 FAD binding domain; Region: FAD_binding_4; pfam01565 395019006207 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395019006208 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 395019006209 putative active site [active] 395019006210 putative metal binding site [ion binding]; other site 395019006211 transcriptional regulator; Provisional; Region: PRK10632 395019006212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019006213 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 395019006214 putative effector binding pocket; other site 395019006215 dimerization interface [polypeptide binding]; other site 395019006216 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019006217 Fusaric acid resistance protein family; Region: FUSC; pfam04632 395019006218 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 395019006219 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 395019006220 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 395019006221 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019006222 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019006223 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395019006224 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019006225 dimer interface [polypeptide binding]; other site 395019006226 putative CheW interface [polypeptide binding]; other site 395019006227 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 395019006228 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019006229 putative substrate translocation pore; other site 395019006230 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 395019006231 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 395019006232 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 395019006233 Part of AAA domain; Region: AAA_19; pfam13245 395019006234 Family description; Region: UvrD_C_2; pfam13538 395019006235 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 395019006236 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395019006237 active site 395019006238 HIGH motif; other site 395019006239 nucleotide binding site [chemical binding]; other site 395019006240 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 395019006241 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 395019006242 active site 395019006243 KMSKS motif; other site 395019006244 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 395019006245 tRNA binding surface [nucleotide binding]; other site 395019006246 anticodon binding site; other site 395019006247 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 395019006248 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 395019006249 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 395019006250 active site 395019006251 tetramer interface; other site 395019006252 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 395019006253 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 395019006254 CHASE2 domain; Region: CHASE2; pfam05226 395019006255 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395019006256 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 395019006257 dimer interface [polypeptide binding]; other site 395019006258 phosphorylation site [posttranslational modification] 395019006259 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 395019006260 ATP binding site [chemical binding]; other site 395019006261 Mg2+ binding site [ion binding]; other site 395019006262 G-X-G motif; other site 395019006263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 395019006264 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395019006265 FecR protein; Region: FecR; pfam04773 395019006266 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395019006267 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 395019006268 active site 395019006269 phosphorylation site [posttranslational modification] 395019006270 intermolecular recognition site; other site 395019006271 dimerization interface [polypeptide binding]; other site 395019006272 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 395019006273 DNA binding site [nucleotide binding] 395019006274 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 395019006275 CPxP motif; other site 395019006276 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019006277 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019006278 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 395019006279 putative effector binding pocket; other site 395019006280 dimerization interface [polypeptide binding]; other site 395019006281 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 395019006282 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 395019006283 tetrameric interface [polypeptide binding]; other site 395019006284 NAD binding site [chemical binding]; other site 395019006285 catalytic residues [active] 395019006286 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395019006287 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395019006288 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 395019006289 putative active site [active] 395019006290 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395019006291 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 395019006292 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 395019006293 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395019006294 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395019006295 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 395019006296 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 395019006297 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395019006298 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019006299 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019006300 TM-ABC transporter signature motif; other site 395019006301 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395019006302 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 395019006303 Walker A/P-loop; other site 395019006304 ATP binding site [chemical binding]; other site 395019006305 Q-loop/lid; other site 395019006306 ABC transporter signature motif; other site 395019006307 Walker B; other site 395019006308 D-loop; other site 395019006309 H-loop/switch region; other site 395019006310 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 395019006311 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 395019006312 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395019006313 putative ligand binding site [chemical binding]; other site 395019006314 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395019006315 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 395019006316 substrate binding site [chemical binding]; other site 395019006317 ATP binding site [chemical binding]; other site 395019006318 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 395019006319 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 395019006320 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 395019006321 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395019006322 dimer interface [polypeptide binding]; other site 395019006323 PYR/PP interface [polypeptide binding]; other site 395019006324 TPP binding site [chemical binding]; other site 395019006325 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395019006326 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 395019006327 TPP-binding site [chemical binding]; other site 395019006328 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395019006329 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 395019006330 hypothetical protein; Provisional; Region: PRK02487 395019006331 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 395019006332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019006333 NAD(P) binding site [chemical binding]; other site 395019006334 active site 395019006335 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395019006336 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019006337 Walker A/P-loop; other site 395019006338 ATP binding site [chemical binding]; other site 395019006339 Q-loop/lid; other site 395019006340 ABC transporter signature motif; other site 395019006341 Walker B; other site 395019006342 D-loop; other site 395019006343 H-loop/switch region; other site 395019006344 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395019006345 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395019006346 Walker A/P-loop; other site 395019006347 ATP binding site [chemical binding]; other site 395019006348 Q-loop/lid; other site 395019006349 ABC transporter signature motif; other site 395019006350 Walker B; other site 395019006351 D-loop; other site 395019006352 H-loop/switch region; other site 395019006353 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395019006354 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395019006355 TM-ABC transporter signature motif; other site 395019006356 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395019006357 TM-ABC transporter signature motif; other site 395019006358 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 395019006359 active site 395019006360 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 395019006361 nudix motif; other site 395019006362 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 395019006363 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019006364 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019006365 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 395019006366 dimerization interface [polypeptide binding]; other site 395019006367 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 395019006368 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 395019006369 motif 1; other site 395019006370 active site 395019006371 motif 2; other site 395019006372 motif 3; other site 395019006373 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 395019006374 DHHA1 domain; Region: DHHA1; pfam02272 395019006375 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395019006376 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395019006377 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 395019006378 Serine hydrolase; Region: Ser_hydrolase; pfam06821 395019006379 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 395019006380 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395019006381 active site 395019006382 HIGH motif; other site 395019006383 nucleotide binding site [chemical binding]; other site 395019006384 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 395019006385 KMSKS motif; other site 395019006386 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 395019006387 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 395019006388 nudix motif; other site 395019006389 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 395019006390 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 395019006391 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 395019006392 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 395019006393 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 395019006394 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 395019006395 Pirin-related protein [General function prediction only]; Region: COG1741 395019006396 Pirin; Region: Pirin; pfam02678 395019006397 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 395019006398 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 395019006399 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 395019006400 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 395019006401 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 395019006402 DXD motif; other site 395019006403 PilZ domain; Region: PilZ; pfam07238 395019006404 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 395019006405 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 395019006406 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 395019006407 endo-1,4-D-glucanase; Provisional; Region: PRK11097 395019006408 cellulose synthase regulator protein; Provisional; Region: PRK11114 395019006409 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 395019006410 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 395019006411 Citrate transporter; Region: CitMHS; pfam03600 395019006412 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019006413 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019006414 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 395019006415 putative dimerization interface [polypeptide binding]; other site 395019006416 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 395019006417 Secretin and TonB N terminus short domain; Region: STN; smart00965 395019006418 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 395019006419 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 395019006420 N-terminal plug; other site 395019006421 ligand-binding site [chemical binding]; other site 395019006422 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 395019006423 FecR protein; Region: FecR; pfam04773 395019006424 RNA polymerase sigma factor; Provisional; Region: PRK12528 395019006425 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019006426 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 395019006427 DNA binding residues [nucleotide binding] 395019006428 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019006429 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019006430 trimer interface [polypeptide binding]; other site 395019006431 eyelet of channel; other site 395019006432 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395019006433 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 395019006434 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395019006435 catalytic residue [active] 395019006436 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 395019006437 VirB7 interaction site; other site 395019006438 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395019006439 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 395019006440 active site 395019006441 phosphorylation site [posttranslational modification] 395019006442 intermolecular recognition site; other site 395019006443 dimerization interface [polypeptide binding]; other site 395019006444 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 395019006445 DNA binding site [nucleotide binding] 395019006446 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 395019006447 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 395019006448 PAS domain; Region: PAS_9; pfam13426 395019006449 putative active site [active] 395019006450 heme pocket [chemical binding]; other site 395019006451 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019006452 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019006453 metal binding site [ion binding]; metal-binding site 395019006454 active site 395019006455 I-site; other site 395019006456 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 395019006457 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395019006458 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 395019006459 non-specific DNA interactions [nucleotide binding]; other site 395019006460 DNA binding site [nucleotide binding] 395019006461 sequence specific DNA binding site [nucleotide binding]; other site 395019006462 putative cAMP binding site [chemical binding]; other site 395019006463 lipase chaperone; Provisional; Region: PRK01294 395019006464 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 395019006465 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 395019006466 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 395019006467 Lipase (class 2); Region: Lipase_2; pfam01674 395019006468 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 395019006469 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 395019006470 FtsX-like permease family; Region: FtsX; pfam02687 395019006471 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395019006472 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395019006473 Walker A/P-loop; other site 395019006474 ATP binding site [chemical binding]; other site 395019006475 Q-loop/lid; other site 395019006476 ABC transporter signature motif; other site 395019006477 Walker B; other site 395019006478 D-loop; other site 395019006479 H-loop/switch region; other site 395019006480 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019006481 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 395019006482 Cytochrome P450; Region: p450; pfam00067 395019006483 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 395019006484 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 395019006485 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 395019006486 putative NADP binding site [chemical binding]; other site 395019006487 active site 395019006488 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 395019006489 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 395019006490 putative NAD(P) binding site [chemical binding]; other site 395019006491 active site 395019006492 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 395019006493 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 395019006494 active site 395019006495 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 395019006496 active site 395019006497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019006498 NAD(P) binding site [chemical binding]; other site 395019006499 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 395019006500 active site 395019006501 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 395019006502 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 395019006503 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395019006504 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 395019006505 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 395019006506 putative active site [active] 395019006507 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395019006508 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 395019006509 Walker A/P-loop; other site 395019006510 ATP binding site [chemical binding]; other site 395019006511 Q-loop/lid; other site 395019006512 ABC transporter signature motif; other site 395019006513 Walker B; other site 395019006514 D-loop; other site 395019006515 H-loop/switch region; other site 395019006516 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395019006517 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 395019006518 E3 interaction surface; other site 395019006519 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019006520 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395019006521 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 395019006522 NAD(P) binding site [chemical binding]; other site 395019006523 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019006524 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395019006525 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395019006526 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019006527 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019006528 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 395019006529 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 395019006530 catalytic loop [active] 395019006531 iron binding site [ion binding]; other site 395019006532 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395019006533 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019006534 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019006535 trimer interface [polypeptide binding]; other site 395019006536 eyelet of channel; other site 395019006537 aldolase II superfamily protein; Provisional; Region: PRK07044 395019006538 intersubunit interface [polypeptide binding]; other site 395019006539 active site 395019006540 Zn2+ binding site [ion binding]; other site 395019006541 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 395019006542 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 395019006543 putative substrate translocation pore; other site 395019006544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019006545 short chain dehydrogenase; Validated; Region: PRK07069 395019006546 NAD(P) binding site [chemical binding]; other site 395019006547 active site 395019006548 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 395019006549 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395019006550 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019006551 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019006552 amidase; Provisional; Region: PRK07042 395019006553 Amidase; Region: Amidase; cl11426 395019006554 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 395019006555 D-galactonate transporter; Region: 2A0114; TIGR00893 395019006556 putative substrate translocation pore; other site 395019006557 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019006558 MarR family; Region: MarR_2; pfam12802 395019006559 EthD domain; Region: EthD; cl17553 395019006560 LysR family transcriptional regulator; Provisional; Region: PRK14997 395019006561 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019006562 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 395019006563 putative effector binding pocket; other site 395019006564 putative dimerization interface [polypeptide binding]; other site 395019006565 Isochorismatase family; Region: Isochorismatase; pfam00857 395019006566 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 395019006567 catalytic triad [active] 395019006568 dimer interface [polypeptide binding]; other site 395019006569 conserved cis-peptide bond; other site 395019006570 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 395019006571 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 395019006572 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395019006573 active site 395019006574 catalytic tetrad [active] 395019006575 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019006576 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019006577 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 395019006578 putative effector binding pocket; other site 395019006579 putative dimerization interface [polypeptide binding]; other site 395019006580 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 395019006581 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019006582 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 395019006583 DNA binding residues [nucleotide binding] 395019006584 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019006585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019006586 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 395019006587 dimerization interface [polypeptide binding]; other site 395019006588 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395019006589 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 395019006590 NAD(P) binding site [chemical binding]; other site 395019006591 active site 395019006592 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 395019006593 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 395019006594 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 395019006595 active site 395019006596 catalytic residues [active] 395019006597 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395019006598 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 395019006599 Peptidase family M23; Region: Peptidase_M23; pfam01551 395019006600 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 395019006601 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 395019006602 active site 395019006603 acyl-activating enzyme (AAE) consensus motif; other site 395019006604 putative CoA binding site [chemical binding]; other site 395019006605 AMP binding site [chemical binding]; other site 395019006606 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 395019006607 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 395019006608 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 395019006609 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 395019006610 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 395019006611 catalytic core [active] 395019006612 CsbD-like; Region: CsbD; pfam05532 395019006613 Entericidin EcnA/B family; Region: Entericidin; cl02322 395019006614 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 395019006615 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 395019006616 tetramer interface [polypeptide binding]; other site 395019006617 heme binding pocket [chemical binding]; other site 395019006618 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 395019006619 domain interactions; other site 395019006620 Hemerythrin-like domain; Region: Hr-like; cd12108 395019006621 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 395019006622 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 395019006623 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 395019006624 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 395019006625 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 395019006626 polyphosphate kinase; Provisional; Region: PRK05443 395019006627 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 395019006628 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 395019006629 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 395019006630 putative domain interface [polypeptide binding]; other site 395019006631 putative active site [active] 395019006632 catalytic site [active] 395019006633 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 395019006634 putative domain interface [polypeptide binding]; other site 395019006635 putative active site [active] 395019006636 catalytic site [active] 395019006637 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395019006638 PAS domain; Region: PAS; smart00091 395019006639 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 395019006640 dimer interface [polypeptide binding]; other site 395019006641 phosphorylation site [posttranslational modification] 395019006642 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 395019006643 ATP binding site [chemical binding]; other site 395019006644 Mg2+ binding site [ion binding]; other site 395019006645 G-X-G motif; other site 395019006646 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 395019006647 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 395019006648 active site 395019006649 phosphorylation site [posttranslational modification] 395019006650 intermolecular recognition site; other site 395019006651 dimerization interface [polypeptide binding]; other site 395019006652 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 395019006653 DNA binding site [nucleotide binding] 395019006654 transcriptional regulator PhoU; Provisional; Region: PRK11115 395019006655 PhoU domain; Region: PhoU; pfam01895 395019006656 PhoU domain; Region: PhoU; pfam01895 395019006657 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 395019006658 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 395019006659 Walker A/P-loop; other site 395019006660 ATP binding site [chemical binding]; other site 395019006661 Q-loop/lid; other site 395019006662 ABC transporter signature motif; other site 395019006663 Walker B; other site 395019006664 D-loop; other site 395019006665 H-loop/switch region; other site 395019006666 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 395019006667 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 395019006668 dimer interface [polypeptide binding]; other site 395019006669 conserved gate region; other site 395019006670 putative PBP binding loops; other site 395019006671 ABC-ATPase subunit interface; other site 395019006672 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 395019006673 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 395019006674 dimer interface [polypeptide binding]; other site 395019006675 conserved gate region; other site 395019006676 putative PBP binding loops; other site 395019006677 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 395019006678 ABC-ATPase subunit interface; other site 395019006679 PBP superfamily domain; Region: PBP_like_2; cl17296 395019006680 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 395019006681 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 395019006682 active site 395019006683 substrate binding site [chemical binding]; other site 395019006684 metal binding site [ion binding]; metal-binding site 395019006685 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 395019006686 dihydropteroate synthase; Region: DHPS; TIGR01496 395019006687 substrate binding pocket [chemical binding]; other site 395019006688 dimer interface [polypeptide binding]; other site 395019006689 inhibitor binding site; inhibition site 395019006690 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 395019006691 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 395019006692 Walker A motif; other site 395019006693 ATP binding site [chemical binding]; other site 395019006694 Walker B motif; other site 395019006695 arginine finger; other site 395019006696 Peptidase family M41; Region: Peptidase_M41; pfam01434 395019006697 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 395019006698 FtsJ-like methyltransferase; Region: FtsJ; cl17430 395019006699 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 395019006700 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 395019006701 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 395019006702 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 395019006703 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395019006704 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 395019006705 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395019006706 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 395019006707 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 395019006708 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395019006709 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395019006710 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 395019006711 IMP binding site; other site 395019006712 dimer interface [polypeptide binding]; other site 395019006713 interdomain contacts; other site 395019006714 partial ornithine binding site; other site 395019006715 leucine export protein LeuE; Provisional; Region: PRK10958 395019006716 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 395019006717 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 395019006718 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 395019006719 catalytic site [active] 395019006720 subunit interface [polypeptide binding]; other site 395019006721 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 395019006722 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019006723 putative substrate translocation pore; other site 395019006724 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 395019006725 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 395019006726 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395019006727 catalytic residue [active] 395019006728 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395019006729 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395019006730 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 395019006731 Methyltransferase domain; Region: Methyltransf_11; pfam08241 395019006732 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 395019006733 RNA/DNA hybrid binding site [nucleotide binding]; other site 395019006734 active site 395019006735 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 395019006736 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 395019006737 active site 395019006738 catalytic site [active] 395019006739 substrate binding site [chemical binding]; other site 395019006740 hypothetical protein; Provisional; Region: PRK02237 395019006741 proline/glycine betaine transporter; Provisional; Region: PRK10642 395019006742 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 395019006743 putative substrate translocation pore; other site 395019006744 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 395019006745 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 395019006746 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 395019006747 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395019006748 active site 395019006749 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 395019006750 putative active site [active] 395019006751 catalytic site [active] 395019006752 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 395019006753 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 395019006754 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 395019006755 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK02098 395019006756 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 395019006757 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 395019006758 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 395019006759 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 395019006760 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 395019006761 Coenzyme A transferase; Region: CoA_trans; cl17247 395019006762 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 395019006763 Malonate transporter MadL subunit; Region: MadL; cl04273 395019006764 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 395019006765 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019006766 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 395019006767 dimerization interface [polypeptide binding]; other site 395019006768 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 395019006769 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395019006770 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395019006771 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395019006772 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 395019006773 putative dimer interface [polypeptide binding]; other site 395019006774 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 395019006775 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395019006776 putative dimer interface [polypeptide binding]; other site 395019006777 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 395019006778 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 395019006779 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 395019006780 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019006781 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 395019006782 dimerization interface [polypeptide binding]; other site 395019006783 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 395019006784 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019006785 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 395019006786 putative substrate translocation pore; other site 395019006787 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 395019006788 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 395019006789 active site 395019006790 Zn binding site [ion binding]; other site 395019006791 allantoate amidohydrolase; Reviewed; Region: PRK12893 395019006792 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 395019006793 active site 395019006794 metal binding site [ion binding]; metal-binding site 395019006795 dimer interface [polypeptide binding]; other site 395019006796 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 395019006797 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019006798 putative substrate translocation pore; other site 395019006799 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019006800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019006801 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 395019006802 dimerization interface [polypeptide binding]; other site 395019006803 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 395019006804 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 395019006805 Na binding site [ion binding]; other site 395019006806 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 395019006807 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 395019006808 NAD binding site [chemical binding]; other site 395019006809 active site 395019006810 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395019006811 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019006812 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019006813 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395019006814 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019006815 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 395019006816 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 395019006817 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 395019006818 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395019006819 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395019006820 DNA binding site [nucleotide binding] 395019006821 domain linker motif; other site 395019006822 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 395019006823 putative dimerization interface [polypeptide binding]; other site 395019006824 putative ligand binding site [chemical binding]; other site 395019006825 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395019006826 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 395019006827 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 395019006828 dimer interface [polypeptide binding]; other site 395019006829 conserved gate region; other site 395019006830 ABC-ATPase subunit interface; other site 395019006831 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395019006832 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 395019006833 putative PBP binding loops; other site 395019006834 ABC-ATPase subunit interface; other site 395019006835 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395019006836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019006837 Walker A/P-loop; other site 395019006838 ATP binding site [chemical binding]; other site 395019006839 Q-loop/lid; other site 395019006840 ABC transporter signature motif; other site 395019006841 Walker B; other site 395019006842 D-loop; other site 395019006843 H-loop/switch region; other site 395019006844 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 395019006845 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395019006846 active site 395019006847 metal binding site [ion binding]; metal-binding site 395019006848 hexamer interface [polypeptide binding]; other site 395019006849 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019006850 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 395019006851 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 395019006852 EamA-like transporter family; Region: EamA; pfam00892 395019006853 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 395019006854 ThiC-associated domain; Region: ThiC-associated; pfam13667 395019006855 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 395019006856 EamA-like transporter family; Region: EamA; pfam00892 395019006857 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395019006858 EamA-like transporter family; Region: EamA; pfam00892 395019006859 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 395019006860 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 395019006861 hypothetical protein; Provisional; Region: PRK09256 395019006862 AAA domain; Region: AAA_30; pfam13604 395019006863 Family description; Region: UvrD_C_2; pfam13538 395019006864 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 395019006865 Family description; Region: UvrD_C_2; pfam13538 395019006866 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 395019006867 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 395019006868 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 395019006869 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 395019006870 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 395019006871 putative proline-specific permease; Provisional; Region: proY; PRK10580 395019006872 Spore germination protein; Region: Spore_permease; cl17796 395019006873 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 395019006874 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395019006875 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 395019006876 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 395019006877 dimer interface [polypeptide binding]; other site 395019006878 conserved gate region; other site 395019006879 putative PBP binding loops; other site 395019006880 ABC-ATPase subunit interface; other site 395019006881 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 395019006882 dimer interface [polypeptide binding]; other site 395019006883 conserved gate region; other site 395019006884 putative PBP binding loops; other site 395019006885 ABC-ATPase subunit interface; other site 395019006886 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 395019006887 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 395019006888 Walker A/P-loop; other site 395019006889 ATP binding site [chemical binding]; other site 395019006890 Q-loop/lid; other site 395019006891 ABC transporter signature motif; other site 395019006892 Walker B; other site 395019006893 D-loop; other site 395019006894 H-loop/switch region; other site 395019006895 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019006896 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 395019006897 putative DNA binding site [nucleotide binding]; other site 395019006898 putative Zn2+ binding site [ion binding]; other site 395019006899 AsnC family; Region: AsnC_trans_reg; pfam01037 395019006900 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 395019006901 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395019006902 NAD binding site [chemical binding]; other site 395019006903 substrate binding site [chemical binding]; other site 395019006904 putative active site [active] 395019006905 Predicted transcriptional regulator [Transcription]; Region: COG1959 395019006906 Transcriptional regulator; Region: Rrf2; pfam02082 395019006907 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 395019006908 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 395019006909 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395019006910 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019006911 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395019006912 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019006913 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019006914 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 395019006915 Protein export membrane protein; Region: SecD_SecF; cl14618 395019006916 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 395019006917 Protein export membrane protein; Region: SecD_SecF; cl14618 395019006918 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 395019006919 Cupin; Region: Cupin_6; pfam12852 395019006920 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019006921 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019006922 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019006923 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019006924 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019006925 trimer interface [polypeptide binding]; other site 395019006926 eyelet of channel; other site 395019006927 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395019006928 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019006929 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395019006930 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019006931 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 395019006932 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 395019006933 catalytic loop [active] 395019006934 iron binding site [ion binding]; other site 395019006935 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395019006936 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 395019006937 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019006938 active site 395019006939 metal binding site [ion binding]; metal-binding site 395019006940 NYN domain; Region: NYN; pfam01936 395019006941 putative metal binding site [ion binding]; other site 395019006942 Uncharacterized conserved protein [Function unknown]; Region: COG1432 395019006943 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 395019006944 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 395019006945 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395019006946 NAD(P) binding site [chemical binding]; other site 395019006947 putative active site [active] 395019006948 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 395019006949 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019006950 catalytic triad [active] 395019006951 PAS domain; Region: PAS_9; pfam13426 395019006952 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 395019006953 putative active site [active] 395019006954 heme pocket [chemical binding]; other site 395019006955 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019006956 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019006957 metal binding site [ion binding]; metal-binding site 395019006958 active site 395019006959 I-site; other site 395019006960 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 395019006961 HDOD domain; Region: HDOD; pfam08668 395019006962 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 395019006963 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 395019006964 substrate binding pocket [chemical binding]; other site 395019006965 membrane-bound complex binding site; other site 395019006966 hinge residues; other site 395019006967 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 395019006968 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 395019006969 putative active site [active] 395019006970 Zn binding site [ion binding]; other site 395019006971 succinylarginine dihydrolase; Provisional; Region: PRK13281 395019006972 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 395019006973 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 395019006974 NAD(P) binding site [chemical binding]; other site 395019006975 catalytic residues [active] 395019006976 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 395019006977 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 395019006978 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 395019006979 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 395019006980 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 395019006981 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 395019006982 inhibitor-cofactor binding pocket; inhibition site 395019006983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019006984 catalytic residue [active] 395019006985 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395019006986 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395019006987 conserved cys residue [active] 395019006988 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019006989 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019006990 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 395019006991 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 395019006992 Walker A/P-loop; other site 395019006993 ATP binding site [chemical binding]; other site 395019006994 Q-loop/lid; other site 395019006995 ABC transporter signature motif; other site 395019006996 Walker B; other site 395019006997 D-loop; other site 395019006998 H-loop/switch region; other site 395019006999 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395019007000 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 395019007001 dimer interface [polypeptide binding]; other site 395019007002 conserved gate region; other site 395019007003 putative PBP binding loops; other site 395019007004 ABC-ATPase subunit interface; other site 395019007005 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395019007006 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 395019007007 dimer interface [polypeptide binding]; other site 395019007008 conserved gate region; other site 395019007009 putative PBP binding loops; other site 395019007010 ABC-ATPase subunit interface; other site 395019007011 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 395019007012 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 395019007013 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 395019007014 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 395019007015 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 395019007016 B12 binding site [chemical binding]; other site 395019007017 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 395019007018 FeS/SAM binding site; other site 395019007019 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 395019007020 ligand binding site; other site 395019007021 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 395019007022 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 395019007023 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395019007024 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 395019007025 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395019007026 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019007027 pyridoxamine kinase; Validated; Region: PRK05756 395019007028 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 395019007029 dimer interface [polypeptide binding]; other site 395019007030 pyridoxal binding site [chemical binding]; other site 395019007031 ATP binding site [chemical binding]; other site 395019007032 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 395019007033 Phosphoesterase family; Region: Phosphoesterase; pfam04185 395019007034 Domain of unknown function (DUF756); Region: DUF756; pfam05506 395019007035 Domain of unknown function (DUF756); Region: DUF756; pfam05506 395019007036 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019007037 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395019007038 dimerization interface [polypeptide binding]; other site 395019007039 ligand binding site [chemical binding]; other site 395019007040 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019007041 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 395019007042 DNA-binding site [nucleotide binding]; DNA binding site 395019007043 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 395019007044 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 395019007045 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 395019007046 active site 395019007047 tetramer interface [polypeptide binding]; other site 395019007048 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 395019007049 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 395019007050 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395019007051 putative ADP-binding pocket [chemical binding]; other site 395019007052 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395019007053 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395019007054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019007055 Walker A/P-loop; other site 395019007056 ATP binding site [chemical binding]; other site 395019007057 Q-loop/lid; other site 395019007058 ABC transporter signature motif; other site 395019007059 Walker B; other site 395019007060 D-loop; other site 395019007061 H-loop/switch region; other site 395019007062 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 395019007063 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 395019007064 active site 395019007065 homotetramer interface [polypeptide binding]; other site 395019007066 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 395019007067 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 395019007068 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 395019007069 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019007070 Cu(I) binding site [ion binding]; other site 395019007071 Protein of unknown function (DUF461); Region: DUF461; pfam04314 395019007072 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 395019007073 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019007074 Coenzyme A binding pocket [chemical binding]; other site 395019007075 Pirin-related protein [General function prediction only]; Region: COG1741 395019007076 Pirin; Region: Pirin; pfam02678 395019007077 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 395019007078 LysR family transcriptional regulator; Provisional; Region: PRK14997 395019007079 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019007080 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 395019007081 putative effector binding pocket; other site 395019007082 putative dimerization interface [polypeptide binding]; other site 395019007083 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 395019007084 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 395019007085 active site 395019007086 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 395019007087 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019007088 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 395019007089 non-specific DNA binding site [nucleotide binding]; other site 395019007090 salt bridge; other site 395019007091 sequence-specific DNA binding site [nucleotide binding]; other site 395019007092 Cupin domain; Region: Cupin_2; cl17218 395019007093 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395019007094 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395019007095 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 395019007096 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 395019007097 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 395019007098 GIY-YIG motif/motif A; other site 395019007099 active site 395019007100 catalytic site [active] 395019007101 putative DNA binding site [nucleotide binding]; other site 395019007102 metal binding site [ion binding]; metal-binding site 395019007103 UvrB/uvrC motif; Region: UVR; pfam02151 395019007104 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 395019007105 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 395019007106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 395019007107 elongation factor P; Validated; Region: PRK00529 395019007108 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 395019007109 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 395019007110 RNA binding site [nucleotide binding]; other site 395019007111 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 395019007112 RNA binding site [nucleotide binding]; other site 395019007113 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395019007114 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 395019007115 active site 395019007116 phosphorylation site [posttranslational modification] 395019007117 intermolecular recognition site; other site 395019007118 dimerization interface [polypeptide binding]; other site 395019007119 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 395019007120 Walker A motif; other site 395019007121 ATP binding site [chemical binding]; other site 395019007122 Walker B motif; other site 395019007123 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395019007124 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 395019007125 beta-hexosaminidase; Provisional; Region: PRK05337 395019007126 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 395019007127 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 395019007128 active site 395019007129 hydrophilic channel; other site 395019007130 dimerization interface [polypeptide binding]; other site 395019007131 catalytic residues [active] 395019007132 active site lid [active] 395019007133 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 395019007134 Recombination protein O N terminal; Region: RecO_N; pfam11967 395019007135 Recombination protein O C terminal; Region: RecO_C; pfam02565 395019007136 GTPase Era; Reviewed; Region: era; PRK00089 395019007137 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 395019007138 G1 box; other site 395019007139 GTP/Mg2+ binding site [chemical binding]; other site 395019007140 Switch I region; other site 395019007141 G2 box; other site 395019007142 Switch II region; other site 395019007143 G3 box; other site 395019007144 G4 box; other site 395019007145 G5 box; other site 395019007146 KH domain; Region: KH_2; pfam07650 395019007147 ribonuclease III; Reviewed; Region: PRK12372 395019007148 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 395019007149 dimerization interface [polypeptide binding]; other site 395019007150 active site 395019007151 metal binding site [ion binding]; metal-binding site 395019007152 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 395019007153 signal peptidase I; Provisional; Region: PRK10861 395019007154 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 395019007155 Catalytic site [active] 395019007156 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 395019007157 GTP-binding protein LepA; Provisional; Region: PRK05433 395019007158 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 395019007159 G1 box; other site 395019007160 putative GEF interaction site [polypeptide binding]; other site 395019007161 GTP/Mg2+ binding site [chemical binding]; other site 395019007162 Switch I region; other site 395019007163 G2 box; other site 395019007164 G3 box; other site 395019007165 Switch II region; other site 395019007166 G4 box; other site 395019007167 G5 box; other site 395019007168 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 395019007169 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 395019007170 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 395019007171 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 395019007172 catalytic residues [active] 395019007173 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 395019007174 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395019007175 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 395019007176 protein binding site [polypeptide binding]; other site 395019007177 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 395019007178 protein binding site [polypeptide binding]; other site 395019007179 anti-sigma E factor; Provisional; Region: rseB; PRK09455 395019007180 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 395019007181 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 395019007182 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 395019007183 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019007184 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 395019007185 DNA binding residues [nucleotide binding] 395019007186 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 395019007187 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 395019007188 dimer interface [polypeptide binding]; other site 395019007189 active site 395019007190 acyl carrier protein; Provisional; Region: acpP; PRK00982 395019007191 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 395019007192 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 395019007193 NAD(P) binding site [chemical binding]; other site 395019007194 homotetramer interface [polypeptide binding]; other site 395019007195 homodimer interface [polypeptide binding]; other site 395019007196 active site 395019007197 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 395019007198 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 395019007199 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 395019007200 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 395019007201 dimer interface [polypeptide binding]; other site 395019007202 active site 395019007203 CoA binding pocket [chemical binding]; other site 395019007204 putative phosphate acyltransferase; Provisional; Region: PRK05331 395019007205 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 395019007206 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 395019007207 Maf-like protein; Region: Maf; pfam02545 395019007208 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 395019007209 active site 395019007210 dimer interface [polypeptide binding]; other site 395019007211 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 395019007212 putative SAM binding site [chemical binding]; other site 395019007213 homodimer interface [polypeptide binding]; other site 395019007214 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 395019007215 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 395019007216 tandem repeat interface [polypeptide binding]; other site 395019007217 oligomer interface [polypeptide binding]; other site 395019007218 active site residues [active] 395019007219 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 395019007220 iron-sulfur cluster [ion binding]; other site 395019007221 [2Fe-2S] cluster binding site [ion binding]; other site 395019007222 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 395019007223 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 395019007224 motif II; other site 395019007225 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 395019007226 S4 domain; Region: S4; pfam01479 395019007227 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 395019007228 active site 395019007229 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 395019007230 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 395019007231 homodimer interface [polypeptide binding]; other site 395019007232 oligonucleotide binding site [chemical binding]; other site 395019007233 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 395019007234 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 395019007235 FeS/SAM binding site; other site 395019007236 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 395019007237 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 395019007238 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 395019007239 GTP binding site; other site 395019007240 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 395019007241 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 395019007242 dimer interface [polypeptide binding]; other site 395019007243 putative functional site; other site 395019007244 putative MPT binding site; other site 395019007245 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 395019007246 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019007247 Coenzyme A binding pocket [chemical binding]; other site 395019007248 RmuC family; Region: RmuC; pfam02646 395019007249 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395019007250 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 395019007251 dimerization interface [polypeptide binding]; other site 395019007252 ligand binding site [chemical binding]; other site 395019007253 NADP binding site [chemical binding]; other site 395019007254 catalytic site [active] 395019007255 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 395019007256 Uncharacterized conserved protein [Function unknown]; Region: COG1556 395019007257 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 395019007258 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 395019007259 active site 395019007260 Ferredoxin [Energy production and conversion]; Region: COG1146 395019007261 4Fe-4S binding domain; Region: Fer4; cl02805 395019007262 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 395019007263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 395019007264 CreA protein; Region: CreA; pfam05981 395019007265 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 395019007266 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019007267 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019007268 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019007269 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 395019007270 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 395019007271 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 395019007272 S4 domain; Region: S4_2; pfam13275 395019007273 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 395019007274 putative efflux protein, MATE family; Region: matE; TIGR00797 395019007275 cation binding site [ion binding]; other site 395019007276 fumarate hydratase; Reviewed; Region: fumC; PRK00485 395019007277 Class II fumarases; Region: Fumarase_classII; cd01362 395019007278 active site 395019007279 tetramer interface [polypeptide binding]; other site 395019007280 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 395019007281 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 395019007282 dimerization interface [polypeptide binding]; other site 395019007283 putative DNA binding site [nucleotide binding]; other site 395019007284 putative Zn2+ binding site [ion binding]; other site 395019007285 FecR protein; Region: FecR; pfam04773 395019007286 thymidylate synthase; Provisional; Region: thyA; PRK13821 395019007287 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 395019007288 dimerization interface [polypeptide binding]; other site 395019007289 active site 395019007290 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 395019007291 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395019007292 Walker A motif; other site 395019007293 ATP binding site [chemical binding]; other site 395019007294 Walker B motif; other site 395019007295 arginine finger; other site 395019007296 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 395019007297 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 395019007298 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 395019007299 folate binding site [chemical binding]; other site 395019007300 NADP+ binding site [chemical binding]; other site 395019007301 peptidase PmbA; Provisional; Region: PRK11040 395019007302 hypothetical protein; Provisional; Region: PRK05255 395019007303 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 395019007304 MPT binding site; other site 395019007305 trimer interface [polypeptide binding]; other site 395019007306 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 395019007307 catalytic site [active] 395019007308 putative active site [active] 395019007309 putative substrate binding site [chemical binding]; other site 395019007310 dimer interface [polypeptide binding]; other site 395019007311 Peptidase family M48; Region: Peptidase_M48; pfam01435 395019007312 GTPase RsgA; Reviewed; Region: PRK00098 395019007313 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 395019007314 RNA binding site [nucleotide binding]; other site 395019007315 homodimer interface [polypeptide binding]; other site 395019007316 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 395019007317 GTPase/Zn-binding domain interface [polypeptide binding]; other site 395019007318 GTP/Mg2+ binding site [chemical binding]; other site 395019007319 G4 box; other site 395019007320 G5 box; other site 395019007321 G1 box; other site 395019007322 Switch I region; other site 395019007323 G2 box; other site 395019007324 G3 box; other site 395019007325 Switch II region; other site 395019007326 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 395019007327 CobD/CbiB family protein; Provisional; Region: PRK07630 395019007328 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 395019007329 putative active site [active] 395019007330 putative CoA binding site [chemical binding]; other site 395019007331 nudix motif; other site 395019007332 metal binding site [ion binding]; metal-binding site 395019007333 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 395019007334 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 395019007335 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 395019007336 RimM N-terminal domain; Region: RimM; pfam01782 395019007337 PRC-barrel domain; Region: PRC; pfam05239 395019007338 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 395019007339 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 395019007340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 395019007341 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 395019007342 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395019007343 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019007344 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019007345 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 395019007346 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 395019007347 AsnC family; Region: AsnC_trans_reg; pfam01037 395019007348 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 395019007349 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019007350 hydroxyglutarate oxidase; Provisional; Region: PRK11728 395019007351 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 395019007352 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 395019007353 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 395019007354 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 395019007355 Ligand binding site [chemical binding]; other site 395019007356 Electron transfer flavoprotein domain; Region: ETF; pfam01012 395019007357 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 395019007358 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 395019007359 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 395019007360 dimer interface [polypeptide binding]; other site 395019007361 conserved gate region; other site 395019007362 ABC-ATPase subunit interface; other site 395019007363 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 395019007364 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 395019007365 Walker A/P-loop; other site 395019007366 ATP binding site [chemical binding]; other site 395019007367 Q-loop/lid; other site 395019007368 ABC transporter signature motif; other site 395019007369 Walker B; other site 395019007370 D-loop; other site 395019007371 H-loop/switch region; other site 395019007372 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 395019007373 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 395019007374 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395019007375 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 395019007376 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 395019007377 putative active site [active] 395019007378 Zn binding site [ion binding]; other site 395019007379 Transglycosylase SLT domain; Region: SLT_2; pfam13406 395019007380 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 395019007381 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395019007382 catalytic residue [active] 395019007383 cysteine synthase B; Region: cysM; TIGR01138 395019007384 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 395019007385 dimer interface [polypeptide binding]; other site 395019007386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019007387 catalytic residue [active] 395019007388 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 395019007389 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 395019007390 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 395019007391 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 395019007392 NADP binding site [chemical binding]; other site 395019007393 homopentamer interface [polypeptide binding]; other site 395019007394 substrate binding site [chemical binding]; other site 395019007395 active site 395019007396 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 395019007397 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395019007398 putative ribose interaction site [chemical binding]; other site 395019007399 putative ADP binding site [chemical binding]; other site 395019007400 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 395019007401 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 395019007402 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 395019007403 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 395019007404 tetratricopeptide repeat protein; Provisional; Region: PRK11788 395019007405 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 395019007406 binding surface 395019007407 TPR motif; other site 395019007408 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 395019007409 IHF dimer interface [polypeptide binding]; other site 395019007410 IHF - DNA interface [nucleotide binding]; other site 395019007411 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 395019007412 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 395019007413 RNA binding site [nucleotide binding]; other site 395019007414 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 395019007415 RNA binding site [nucleotide binding]; other site 395019007416 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 395019007417 RNA binding site [nucleotide binding]; other site 395019007418 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 395019007419 RNA binding site [nucleotide binding]; other site 395019007420 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 395019007421 RNA binding site [nucleotide binding]; other site 395019007422 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 395019007423 RNA binding site [nucleotide binding]; other site 395019007424 cytidylate kinase; Provisional; Region: cmk; PRK00023 395019007425 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 395019007426 CMP-binding site; other site 395019007427 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 395019007428 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 395019007429 hinge; other site 395019007430 active site 395019007431 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 395019007432 prephenate dehydrogenase; Validated; Region: PRK08507 395019007433 Chorismate mutase type II; Region: CM_2; cl00693 395019007434 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 395019007435 Prephenate dehydratase; Region: PDT; pfam00800 395019007436 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 395019007437 putative L-Phe binding site [chemical binding]; other site 395019007438 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 395019007439 homodimer interface [polypeptide binding]; other site 395019007440 substrate-cofactor binding pocket; other site 395019007441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019007442 catalytic residue [active] 395019007443 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 395019007444 DNA gyrase subunit A; Validated; Region: PRK05560 395019007445 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 395019007446 CAP-like domain; other site 395019007447 active site 395019007448 primary dimer interface [polypeptide binding]; other site 395019007449 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395019007450 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395019007451 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395019007452 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395019007453 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395019007454 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 395019007455 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019007456 ligand binding site [chemical binding]; other site 395019007457 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 395019007458 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 395019007459 S-adenosylmethionine binding site [chemical binding]; other site 395019007460 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 395019007461 motif II; other site 395019007462 hypothetical protein; Provisional; Region: PRK02237 395019007463 putative transcriptional regulator MerR; Provisional; Region: PRK13752 395019007464 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 395019007465 DNA binding residues [nucleotide binding] 395019007466 dimer interface [polypeptide binding]; other site 395019007467 mercury binding site [ion binding]; other site 395019007468 putative mercuric transport protein; Provisional; Region: PRK13751 395019007469 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 395019007470 metal-binding site [ion binding] 395019007471 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 395019007472 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 395019007473 DNA methylase; Region: N6_N4_Mtase; pfam01555 395019007474 ParB-like nuclease domain; Region: ParB; smart00470 395019007475 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 395019007476 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 395019007477 DNA methylase; Region: N6_N4_Mtase; pfam01555 395019007478 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 395019007479 active site 395019007480 Int/Topo IB signature motif; other site 395019007481 DNA binding site [nucleotide binding] 395019007482 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019007483 MULE transposase domain; Region: MULE; pfam10551 395019007484 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 395019007485 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 395019007486 DNA binding site [nucleotide binding] 395019007487 Int/Topo IB signature motif; other site 395019007488 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 395019007489 active site 395019007490 DNA binding site [nucleotide binding] 395019007491 Int/Topo IB signature motif; other site 395019007492 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019007493 MULE transposase domain; Region: MULE; pfam10551 395019007494 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 395019007495 additional DNA contacts [nucleotide binding]; other site 395019007496 mismatch recognition site; other site 395019007497 active site 395019007498 zinc binding site [ion binding]; other site 395019007499 DNA intercalation site [nucleotide binding]; other site 395019007500 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 395019007501 PLD-like domain; Region: PLDc_2; pfam13091 395019007502 homodimer interface [polypeptide binding]; other site 395019007503 putative active site [active] 395019007504 catalytic site [active] 395019007505 Helix-turn-helix domain; Region: HTH_17; pfam12728 395019007506 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395019007507 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 395019007508 putative dimer interface [polypeptide binding]; other site 395019007509 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 395019007510 Clp amino terminal domain; Region: Clp_N; pfam02861 395019007511 Clp amino terminal domain; Region: Clp_N; pfam02861 395019007512 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 395019007513 Walker A motif; other site 395019007514 ATP binding site [chemical binding]; other site 395019007515 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019007516 Integrase core domain; Region: rve; pfam00665 395019007517 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019007518 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 395019007519 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019007520 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 395019007521 Walker A motif; other site 395019007522 ATP binding site [chemical binding]; other site 395019007523 Walker B motif; other site 395019007524 arginine finger; other site 395019007525 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 395019007526 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 395019007527 Walker A motif; other site 395019007528 ATP binding site [chemical binding]; other site 395019007529 Walker B motif; other site 395019007530 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 395019007531 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 395019007532 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 395019007533 putative active site [active] 395019007534 catalytic site [active] 395019007535 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 395019007536 putative active site [active] 395019007537 catalytic site [active] 395019007538 FtsH Extracellular; Region: FtsH_ext; pfam06480 395019007539 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 395019007540 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 395019007541 Walker A motif; other site 395019007542 ATP binding site [chemical binding]; other site 395019007543 Walker B motif; other site 395019007544 arginine finger; other site 395019007545 Peptidase family M41; Region: Peptidase_M41; pfam01434 395019007546 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 395019007547 putative dimer interface [polypeptide binding]; other site 395019007548 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019007549 Integrase core domain; Region: rve; pfam00665 395019007550 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 395019007551 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019007552 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395019007553 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019007554 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019007555 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 395019007556 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395019007557 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 395019007558 YfdX protein; Region: YfdX; pfam10938 395019007559 YfdX protein; Region: YfdX; pfam10938 395019007560 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 395019007561 RNA polymerase sigma factor; Provisional; Region: PRK11924 395019007562 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 395019007563 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019007564 catalytic residues [active] 395019007565 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 395019007566 PAS fold; Region: PAS_3; pfam08447 395019007567 putative active site [active] 395019007568 heme pocket [chemical binding]; other site 395019007569 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 395019007570 PAS fold; Region: PAS_3; pfam08447 395019007571 putative active site [active] 395019007572 heme pocket [chemical binding]; other site 395019007573 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 395019007574 PAS domain; Region: PAS_9; pfam13426 395019007575 putative active site [active] 395019007576 heme pocket [chemical binding]; other site 395019007577 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019007578 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019007579 metal binding site [ion binding]; metal-binding site 395019007580 active site 395019007581 I-site; other site 395019007582 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 395019007583 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 395019007584 Peptidase family M48; Region: Peptidase_M48; cl12018 395019007585 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 395019007586 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395019007587 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 395019007588 protein binding site [polypeptide binding]; other site 395019007589 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 395019007590 catalytic residues [active] 395019007591 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 395019007592 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 395019007593 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019007594 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 395019007595 ArsC family; Region: ArsC; pfam03960 395019007596 catalytic residues [active] 395019007597 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 395019007598 arsenical-resistance protein; Region: acr3; TIGR00832 395019007599 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395019007600 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395019007601 active site 395019007602 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 395019007603 putative DNA binding site [nucleotide binding]; other site 395019007604 putative Zn2+ binding site [ion binding]; other site 395019007605 hypothetical protein; Reviewed; Region: PRK00024 395019007606 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 395019007607 MPN+ (JAMM) motif; other site 395019007608 Zinc-binding site [ion binding]; other site 395019007609 Domain of unknown function (DUF932); Region: DUF932; pfam06067 395019007610 ParB-like nuclease domain; Region: ParBc; pfam02195 395019007611 Uncharacterized conserved protein [Function unknown]; Region: COG5489 395019007612 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019007613 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 395019007614 non-specific DNA binding site [nucleotide binding]; other site 395019007615 salt bridge; other site 395019007616 sequence-specific DNA binding site [nucleotide binding]; other site 395019007617 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 395019007618 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 395019007619 Helix-turn-helix domain; Region: HTH_17; cl17695 395019007620 Replication initiator protein A; Region: RPA; pfam10134 395019007621 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 395019007622 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 395019007623 P-loop; other site 395019007624 Magnesium ion binding site [ion binding]; other site 395019007625 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 395019007626 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 395019007627 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 395019007628 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 395019007629 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 395019007630 sensor kinase CusS; Provisional; Region: PRK09835 395019007631 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 395019007632 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 395019007633 dimer interface [polypeptide binding]; other site 395019007634 phosphorylation site [posttranslational modification] 395019007635 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 395019007636 ATP binding site [chemical binding]; other site 395019007637 Mg2+ binding site [ion binding]; other site 395019007638 G-X-G motif; other site 395019007639 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 395019007640 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 395019007641 active site 395019007642 phosphorylation site [posttranslational modification] 395019007643 intermolecular recognition site; other site 395019007644 dimerization interface [polypeptide binding]; other site 395019007645 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 395019007646 DNA binding site [nucleotide binding] 395019007647 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 395019007648 Multicopper oxidase; Region: Cu-oxidase; pfam00394 395019007649 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 395019007650 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 395019007651 CopC domain; Region: CopC; pfam04234 395019007652 Copper resistance protein D; Region: CopD; cl00563 395019007653 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 395019007654 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 395019007655 metal-binding site [ion binding] 395019007656 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 395019007657 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395019007658 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 395019007659 motif II; other site 395019007660 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019007661 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019007662 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 395019007663 dimerization interface [polypeptide binding]; other site 395019007664 substrate binding pocket [chemical binding]; other site 395019007665 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 395019007666 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 395019007667 Walker A motif; other site 395019007668 ATP binding site [chemical binding]; other site 395019007669 Walker B motif; other site 395019007670 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 395019007671 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 395019007672 ATP binding site [chemical binding]; other site 395019007673 Walker A motif; other site 395019007674 hexamer interface [polypeptide binding]; other site 395019007675 Walker B motif; other site 395019007676 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 395019007677 Type IV secretory pathway, TrbD component [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TrbD; COG5268 395019007678 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 395019007679 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 395019007680 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 395019007681 Walker A motif; other site 395019007682 ATP binding site [chemical binding]; other site 395019007683 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 395019007684 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 395019007685 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 395019007686 conjugal transfer protein TrbL; Provisional; Region: PRK13875 395019007687 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 395019007688 conjugal transfer protein TrbF; Provisional; Region: PRK13872 395019007689 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 395019007690 VirB7 interaction site; other site 395019007691 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 395019007692 Uncharacterized conserved small protein [Function unknown]; Region: COG5639 395019007693 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019007694 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 395019007695 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 395019007696 PBP superfamily domain; Region: PBP_like; pfam12727 395019007697 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 395019007698 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 395019007699 putative dimer interface [polypeptide binding]; other site 395019007700 [2Fe-2S] cluster binding site [ion binding]; other site 395019007701 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 395019007702 putative dimer interface [polypeptide binding]; other site 395019007703 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 395019007704 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 395019007705 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 395019007706 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 395019007707 catalytic loop [active] 395019007708 iron binding site [ion binding]; other site 395019007709 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 395019007710 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 395019007711 [4Fe-4S] binding site [ion binding]; other site 395019007712 molybdopterin cofactor binding site; other site 395019007713 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 395019007714 molybdopterin cofactor binding site; other site 395019007715 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 395019007716 hypothetical protein; Provisional; Region: PRK06184 395019007717 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395019007718 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 395019007719 TPR motif; other site 395019007720 binding surface 395019007721 TPR repeat; Region: TPR_11; pfam13414 395019007722 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 395019007723 TPR repeat; Region: TPR_11; pfam13414 395019007724 TPR motif; other site 395019007725 binding surface 395019007726 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 395019007727 citrate-proton symporter; Provisional; Region: PRK15075 395019007728 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 395019007729 putative substrate translocation pore; other site 395019007730 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 395019007731 Peptidase C26; Region: Peptidase_C26; pfam07722 395019007732 catalytic triad [active] 395019007733 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395019007734 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019007735 DNA-binding site [nucleotide binding]; DNA binding site 395019007736 FCD domain; Region: FCD; pfam07729 395019007737 amidase; Provisional; Region: PRK07056 395019007738 Amidase; Region: Amidase; cl11426 395019007739 disulfide bond formation protein B; Provisional; Region: PRK02110 395019007740 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 395019007741 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 395019007742 XdhC Rossmann domain; Region: XdhC_C; pfam13478 395019007743 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 395019007744 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 395019007745 active site 395019007746 purine riboside binding site [chemical binding]; other site 395019007747 guanine deaminase; Provisional; Region: PRK09228 395019007748 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 395019007749 active site 395019007750 Predicted membrane protein [Function unknown]; Region: COG2119 395019007751 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 395019007752 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 395019007753 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 395019007754 aminopeptidase N; Provisional; Region: pepN; PRK14015 395019007755 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 395019007756 active site 395019007757 Zn binding site [ion binding]; other site 395019007758 fructose-1,6-bisphosphatase family protein; Region: PLN02628 395019007759 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 395019007760 AMP binding site [chemical binding]; other site 395019007761 metal binding site [ion binding]; metal-binding site 395019007762 active site 395019007763 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395019007764 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 395019007765 putative dimer interface [polypeptide binding]; other site 395019007766 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019007767 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395019007768 BNR repeat-like domain; Region: BNR_2; pfam13088 395019007769 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 395019007770 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 395019007771 N-terminal plug; other site 395019007772 ligand-binding site [chemical binding]; other site 395019007773 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 395019007774 chorismate mutase; Provisional; Region: PRK09269 395019007775 Chorismate mutase type II; Region: CM_2; cl00693 395019007776 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 395019007777 active site 395019007778 catalytic site [active] 395019007779 substrate binding site [chemical binding]; other site 395019007780 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 395019007781 GIY-YIG motif/motif A; other site 395019007782 active site 395019007783 catalytic site [active] 395019007784 putative DNA binding site [nucleotide binding]; other site 395019007785 metal binding site [ion binding]; metal-binding site 395019007786 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 395019007787 DNA-binding site [nucleotide binding]; DNA binding site 395019007788 RNA-binding motif; other site 395019007789 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019007790 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019007791 trimer interface [polypeptide binding]; other site 395019007792 eyelet of channel; other site 395019007793 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 395019007794 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 395019007795 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395019007796 HTH-like domain; Region: HTH_21; pfam13276 395019007797 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395019007798 Integrase core domain; Region: rve; pfam00665 395019007799 Integrase core domain; Region: rve_2; pfam13333 395019007800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019007801 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019007802 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019007803 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 395019007804 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395019007805 Zn2+ binding site [ion binding]; other site 395019007806 Mg2+ binding site [ion binding]; other site 395019007807 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 395019007808 synthetase active site [active] 395019007809 NTP binding site [chemical binding]; other site 395019007810 metal binding site [ion binding]; metal-binding site 395019007811 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 395019007812 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 395019007813 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 395019007814 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 395019007815 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 395019007816 catalytic site [active] 395019007817 G-X2-G-X-G-K; other site 395019007818 hypothetical protein; Provisional; Region: PRK11820 395019007819 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 395019007820 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 395019007821 ribonuclease PH; Reviewed; Region: rph; PRK00173 395019007822 Ribonuclease PH; Region: RNase_PH_bact; cd11362 395019007823 hexamer interface [polypeptide binding]; other site 395019007824 active site 395019007825 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 395019007826 active site 395019007827 dimerization interface [polypeptide binding]; other site 395019007828 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 395019007829 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 395019007830 FeS/SAM binding site; other site 395019007831 HemN C-terminal domain; Region: HemN_C; pfam06969 395019007832 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 395019007833 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019007834 putative substrate translocation pore; other site 395019007835 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395019007836 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 395019007837 putative active site [active] 395019007838 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 395019007839 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 395019007840 putative ion selectivity filter; other site 395019007841 putative pore gating glutamate residue; other site 395019007842 putative H+/Cl- coupling transport residue; other site 395019007843 cell division topological specificity factor MinE; Provisional; Region: PRK13989 395019007844 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 395019007845 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 395019007846 Switch I; other site 395019007847 Switch II; other site 395019007848 septum formation inhibitor; Reviewed; Region: PRK01973 395019007849 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 395019007850 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 395019007851 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019007852 Coenzyme A binding pocket [chemical binding]; other site 395019007853 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 395019007854 Fatty acid desaturase; Region: FA_desaturase; pfam00487 395019007855 Di-iron ligands [ion binding]; other site 395019007856 seryl-tRNA synthetase; Provisional; Region: PRK05431 395019007857 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 395019007858 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 395019007859 dimer interface [polypeptide binding]; other site 395019007860 active site 395019007861 motif 1; other site 395019007862 motif 2; other site 395019007863 motif 3; other site 395019007864 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 395019007865 recombination factor protein RarA; Reviewed; Region: PRK13342 395019007866 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 395019007867 Walker A motif; other site 395019007868 ATP binding site [chemical binding]; other site 395019007869 Walker B motif; other site 395019007870 arginine finger; other site 395019007871 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 395019007872 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 395019007873 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 395019007874 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 395019007875 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 395019007876 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 395019007877 thioredoxin reductase; Provisional; Region: PRK10262 395019007878 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019007879 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019007880 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 395019007881 Smr domain; Region: Smr; pfam01713 395019007882 Predicted membrane protein [Function unknown]; Region: COG2860 395019007883 UPF0126 domain; Region: UPF0126; pfam03458 395019007884 UPF0126 domain; Region: UPF0126; pfam03458 395019007885 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 395019007886 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 395019007887 Walker A/P-loop; other site 395019007888 ATP binding site [chemical binding]; other site 395019007889 Q-loop/lid; other site 395019007890 ABC transporter signature motif; other site 395019007891 Walker B; other site 395019007892 D-loop; other site 395019007893 H-loop/switch region; other site 395019007894 TOBE domain; Region: TOBE_2; pfam08402 395019007895 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395019007896 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 395019007897 dimer interface [polypeptide binding]; other site 395019007898 conserved gate region; other site 395019007899 putative PBP binding loops; other site 395019007900 ABC-ATPase subunit interface; other site 395019007901 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 395019007902 dimer interface [polypeptide binding]; other site 395019007903 conserved gate region; other site 395019007904 putative PBP binding loops; other site 395019007905 ABC-ATPase subunit interface; other site 395019007906 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395019007907 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 395019007908 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 395019007909 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 395019007910 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 395019007911 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 395019007912 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 395019007913 putative active site [active] 395019007914 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 395019007915 glucokinase; Provisional; Region: glk; PRK00292 395019007916 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395019007917 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 395019007918 putative active site [active] 395019007919 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 395019007920 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 395019007921 putative substrate translocation pore; other site 395019007922 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 395019007923 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 395019007924 inhibitor-cofactor binding pocket; inhibition site 395019007925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019007926 catalytic residue [active] 395019007927 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 395019007928 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 395019007929 catalytic motif [active] 395019007930 Zn binding site [ion binding]; other site 395019007931 RibD C-terminal domain; Region: RibD_C; cl17279 395019007932 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 395019007933 Lumazine binding domain; Region: Lum_binding; pfam00677 395019007934 Lumazine binding domain; Region: Lum_binding; pfam00677 395019007935 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 395019007936 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 395019007937 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 395019007938 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 395019007939 dimerization interface [polypeptide binding]; other site 395019007940 active site 395019007941 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 395019007942 homopentamer interface [polypeptide binding]; other site 395019007943 active site 395019007944 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 395019007945 putative RNA binding site [nucleotide binding]; other site 395019007946 aminotransferase; Validated; Region: PRK07337 395019007947 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 395019007948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019007949 homodimer interface [polypeptide binding]; other site 395019007950 catalytic residue [active] 395019007951 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395019007952 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 395019007953 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395019007954 catalytic residue [active] 395019007955 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 395019007956 LysE type translocator; Region: LysE; cl00565 395019007957 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 395019007958 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 395019007959 YGGT family; Region: YGGT; pfam02325 395019007960 YGGT family; Region: YGGT; pfam02325 395019007961 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 395019007962 chromosome condensation membrane protein; Provisional; Region: PRK14196 395019007963 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 395019007964 Chromate transporter; Region: Chromate_transp; pfam02417 395019007965 Chromate transporter; Region: Chromate_transp; pfam02417 395019007966 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 395019007967 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395019007968 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019007969 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019007970 trimer interface [polypeptide binding]; other site 395019007971 eyelet of channel; other site 395019007972 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 395019007973 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 395019007974 The C-terminal domain of 2,4,5-Trihydroxytoluene (THT) oxygenase, which is an extradiol dioxygenease in the 2,4-dinitrotoluene (DNT) degradation pathway; Region: THT_oxygenase_C; cd07257 395019007975 putative active site [active] 395019007976 putative metal binding site [ion binding]; other site 395019007977 FAD binding domain; Region: FAD_binding_3; pfam01494 395019007978 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 395019007979 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395019007980 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 395019007981 acyl-activating enzyme (AAE) consensus motif; other site 395019007982 putative AMP binding site [chemical binding]; other site 395019007983 putative active site [active] 395019007984 acyl-activating enzyme (AAE) consensus motif; other site 395019007985 putative CoA binding site [chemical binding]; other site 395019007986 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 395019007987 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 395019007988 active site 395019007989 Homeodomain-like domain; Region: HTH_23; pfam13384 395019007990 Winged helix-turn helix; Region: HTH_29; pfam13551 395019007991 Homeodomain-like domain; Region: HTH_32; pfam13565 395019007992 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 395019007993 PAS domain; Region: PAS_9; pfam13426 395019007994 putative active site [active] 395019007995 heme pocket [chemical binding]; other site 395019007996 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 395019007997 DNA binding residues [nucleotide binding] 395019007998 dimerization interface [polypeptide binding]; other site 395019007999 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019008000 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 395019008001 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 395019008002 Int/Topo IB signature motif; other site 395019008003 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 395019008004 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 395019008005 catalytic residues [active] 395019008006 catalytic nucleophile [active] 395019008007 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 395019008008 S-adenosylmethionine binding site [chemical binding]; other site 395019008009 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 395019008010 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 395019008011 Flagellin N-methylase; Region: FliB; pfam03692 395019008012 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 395019008013 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 395019008014 FeS/SAM binding site; other site 395019008015 HemN C-terminal domain; Region: HemN_C; pfam06969 395019008016 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 395019008017 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 395019008018 S-adenosylmethionine binding site [chemical binding]; other site 395019008019 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 395019008020 active site residue [active] 395019008021 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 395019008022 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 395019008023 inhibitor-cofactor binding pocket; inhibition site 395019008024 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019008025 catalytic residue [active] 395019008026 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 395019008027 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 395019008028 putative ligand binding site [chemical binding]; other site 395019008029 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395019008030 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019008031 TM-ABC transporter signature motif; other site 395019008032 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395019008033 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395019008034 TM-ABC transporter signature motif; other site 395019008035 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 395019008036 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395019008037 Walker A/P-loop; other site 395019008038 ATP binding site [chemical binding]; other site 395019008039 Q-loop/lid; other site 395019008040 ABC transporter signature motif; other site 395019008041 Walker B; other site 395019008042 D-loop; other site 395019008043 H-loop/switch region; other site 395019008044 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 395019008045 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395019008046 Walker A/P-loop; other site 395019008047 ATP binding site [chemical binding]; other site 395019008048 Q-loop/lid; other site 395019008049 ABC transporter signature motif; other site 395019008050 Walker B; other site 395019008051 D-loop; other site 395019008052 H-loop/switch region; other site 395019008053 UreD urease accessory protein; Region: UreD; cl00530 395019008054 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 395019008055 alpha-gamma subunit interface [polypeptide binding]; other site 395019008056 beta-gamma subunit interface [polypeptide binding]; other site 395019008057 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 395019008058 gamma-beta subunit interface [polypeptide binding]; other site 395019008059 alpha-beta subunit interface [polypeptide binding]; other site 395019008060 urease subunit alpha; Reviewed; Region: ureC; PRK13207 395019008061 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 395019008062 subunit interactions [polypeptide binding]; other site 395019008063 active site 395019008064 flap region; other site 395019008065 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 395019008066 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 395019008067 dimer interface [polypeptide binding]; other site 395019008068 catalytic residues [active] 395019008069 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 395019008070 UreF; Region: UreF; pfam01730 395019008071 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 395019008072 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 395019008073 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 395019008074 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 395019008075 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 395019008076 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395019008077 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 395019008078 putative active site [active] 395019008079 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 395019008080 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 395019008081 active site 395019008082 substrate binding site [chemical binding]; other site 395019008083 metal binding site [ion binding]; metal-binding site 395019008084 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 395019008085 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395019008086 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 395019008087 active site 395019008088 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 395019008089 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395019008090 putative ADP-binding pocket [chemical binding]; other site 395019008091 UDP-glucose 4-epimerase; Region: PLN02240 395019008092 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 395019008093 NAD binding site [chemical binding]; other site 395019008094 homodimer interface [polypeptide binding]; other site 395019008095 active site 395019008096 substrate binding site [chemical binding]; other site 395019008097 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 395019008098 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 395019008099 Mg++ binding site [ion binding]; other site 395019008100 putative catalytic motif [active] 395019008101 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 395019008102 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 395019008103 glutaminase active site [active] 395019008104 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 395019008105 dimer interface [polypeptide binding]; other site 395019008106 active site 395019008107 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 395019008108 dimer interface [polypeptide binding]; other site 395019008109 active site 395019008110 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 395019008111 CoA binding domain; Region: CoA_binding; cl17356 395019008112 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 395019008113 NAD(P) binding site [chemical binding]; other site 395019008114 homodimer interface [polypeptide binding]; other site 395019008115 substrate binding site [chemical binding]; other site 395019008116 active site 395019008117 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 395019008118 Mg++ binding site [ion binding]; other site 395019008119 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 395019008120 putative catalytic motif [active] 395019008121 putative substrate binding site [chemical binding]; other site 395019008122 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395019008123 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 395019008124 putative NAD(P) binding site [chemical binding]; other site 395019008125 active site 395019008126 putative substrate binding site [chemical binding]; other site 395019008127 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 395019008128 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 395019008129 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 395019008130 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 395019008131 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 395019008132 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395019008133 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 395019008134 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 395019008135 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019008136 Integrase core domain; Region: rve; pfam00665 395019008137 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019008138 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 395019008139 Walker A motif; other site 395019008140 ATP binding site [chemical binding]; other site 395019008141 Walker B motif; other site 395019008142 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395019008143 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 395019008144 S-adenosylmethionine binding site [chemical binding]; other site 395019008145 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 395019008146 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 395019008147 Walker A/P-loop; other site 395019008148 ATP binding site [chemical binding]; other site 395019008149 Q-loop/lid; other site 395019008150 ABC transporter signature motif; other site 395019008151 Walker B; other site 395019008152 D-loop; other site 395019008153 H-loop/switch region; other site 395019008154 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 395019008155 putative carbohydrate binding site [chemical binding]; other site 395019008156 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 395019008157 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 395019008158 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 395019008159 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 395019008160 active site 395019008161 metal binding site [ion binding]; metal-binding site 395019008162 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 395019008163 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 395019008164 putative acyl-acceptor binding pocket; other site 395019008165 dihydroorotase; Provisional; Region: PRK07627 395019008166 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 395019008167 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 395019008168 active site 395019008169 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 395019008170 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395019008171 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 395019008172 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395019008173 active site 395019008174 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 395019008175 hypothetical protein; Validated; Region: PRK00228 395019008176 Rubredoxin [Energy production and conversion]; Region: COG1773 395019008177 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 395019008178 iron binding site [ion binding]; other site 395019008179 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 395019008180 dimer interface [polypeptide binding]; other site 395019008181 substrate binding site [chemical binding]; other site 395019008182 ATP binding site [chemical binding]; other site 395019008183 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 395019008184 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 395019008185 ring oligomerisation interface [polypeptide binding]; other site 395019008186 ATP/Mg binding site [chemical binding]; other site 395019008187 stacking interactions; other site 395019008188 hinge regions; other site 395019008189 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 395019008190 oligomerisation interface [polypeptide binding]; other site 395019008191 mobile loop; other site 395019008192 roof hairpin; other site 395019008193 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 395019008194 putative hydrophobic ligand binding site [chemical binding]; other site 395019008195 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 395019008196 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 395019008197 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 395019008198 RNA polymerase sigma factor; Provisional; Region: PRK12511 395019008199 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019008200 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 395019008201 DNA binding residues [nucleotide binding] 395019008202 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 395019008203 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 395019008204 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019008205 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395019008206 hydroxyglutarate oxidase; Provisional; Region: PRK11728 395019008207 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 395019008208 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 395019008209 substrate binding pocket [chemical binding]; other site 395019008210 membrane-bound complex binding site; other site 395019008211 hinge residues; other site 395019008212 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 395019008213 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 395019008214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 395019008215 YheO-like PAS domain; Region: PAS_6; pfam08348 395019008216 HTH domain; Region: HTH_22; pfam13309 395019008217 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 395019008218 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 395019008219 catalytic residues [active] 395019008220 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395019008221 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 395019008222 putative substrate translocation pore; other site 395019008223 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395019008224 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 395019008225 BON domain; Region: BON; pfam04972 395019008226 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 395019008227 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 395019008228 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 395019008229 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 395019008230 putative catalytic residue [active] 395019008231 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019008232 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019008233 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 395019008234 dimerization interface [polypeptide binding]; other site 395019008235 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 395019008236 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 395019008237 XdhC Rossmann domain; Region: XdhC_C; pfam13478 395019008238 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 395019008239 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395019008240 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019008241 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 395019008242 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 395019008243 catalytic loop [active] 395019008244 iron binding site [ion binding]; other site 395019008245 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395019008246 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 395019008247 major facilitator superfamily transporter; Provisional; Region: PRK05122 395019008248 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 395019008249 EamA-like transporter family; Region: EamA; pfam00892 395019008250 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395019008251 EamA-like transporter family; Region: EamA; cl17759 395019008252 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019008253 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019008254 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019008255 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 395019008256 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019008257 catalytic residue [active] 395019008258 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019008259 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019008260 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 395019008261 putative effector binding pocket; other site 395019008262 dimerization interface [polypeptide binding]; other site 395019008263 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395019008264 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 395019008265 putative ligand binding site [chemical binding]; other site 395019008266 putative NAD binding site [chemical binding]; other site 395019008267 catalytic site [active] 395019008268 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 395019008269 putative FMN binding site [chemical binding]; other site 395019008270 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 395019008271 putative substrate translocation pore; other site 395019008272 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019008273 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019008274 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 395019008275 putative substrate translocation pore; other site 395019008276 fumarylacetoacetase; Region: PLN02856 395019008277 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 395019008278 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395019008279 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 395019008280 benzoate transport; Region: 2A0115; TIGR00895 395019008281 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 395019008282 putative substrate translocation pore; other site 395019008283 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 395019008284 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 395019008285 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 395019008286 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395019008287 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 395019008288 Uncharacterized conserved protein [Function unknown]; Region: COG3791 395019008289 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019008290 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395019008291 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019008292 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 395019008293 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395019008294 FAD binding site [chemical binding]; other site 395019008295 substrate binding pocket [chemical binding]; other site 395019008296 catalytic base [active] 395019008297 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 395019008298 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 395019008299 dimer interface [polypeptide binding]; other site 395019008300 decamer (pentamer of dimers) interface [polypeptide binding]; other site 395019008301 catalytic triad [active] 395019008302 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 395019008303 Predicted membrane protein [Function unknown]; Region: COG5393 395019008304 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 395019008305 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 395019008306 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 395019008307 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 395019008308 Type II transport protein GspH; Region: GspH; pfam12019 395019008309 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 395019008310 ATP cone domain; Region: ATP-cone; pfam03477 395019008311 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 395019008312 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 395019008313 dimer interface [polypeptide binding]; other site 395019008314 active site 395019008315 glycine-pyridoxal phosphate binding site [chemical binding]; other site 395019008316 folate binding site [chemical binding]; other site 395019008317 malonic semialdehyde reductase; Provisional; Region: PRK10538 395019008318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019008319 NAD(P) binding site [chemical binding]; other site 395019008320 active site 395019008321 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 395019008322 active site 395019008323 TolQ protein; Region: tolQ; TIGR02796 395019008324 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 395019008325 TolR protein; Region: tolR; TIGR02801 395019008326 TolA protein; Region: tolA_full; TIGR02794 395019008327 TonB C terminal; Region: TonB_2; pfam13103 395019008328 translocation protein TolB; Provisional; Region: tolB; PRK02889 395019008329 TolB amino-terminal domain; Region: TolB_N; pfam04052 395019008330 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395019008331 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395019008332 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395019008333 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395019008334 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019008335 ligand binding site [chemical binding]; other site 395019008336 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 395019008337 Tetratricopeptide repeat; Region: TPR_6; pfam13174 395019008338 PAAR motif; Region: PAAR_motif; pfam05488 395019008339 Cupin; Region: Cupin_6; pfam12852 395019008340 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019008341 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019008342 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 395019008343 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 395019008344 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 395019008345 putative active site [active] 395019008346 putative dimer interface [polypeptide binding]; other site 395019008347 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 395019008348 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 395019008349 NAD binding site [chemical binding]; other site 395019008350 substrate binding site [chemical binding]; other site 395019008351 homodimer interface [polypeptide binding]; other site 395019008352 active site 395019008353 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 395019008354 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 395019008355 substrate binding site; other site 395019008356 tetramer interface; other site 395019008357 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 395019008358 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 395019008359 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 395019008360 NADP binding site [chemical binding]; other site 395019008361 active site 395019008362 putative substrate binding site [chemical binding]; other site 395019008363 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 395019008364 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 395019008365 active site 395019008366 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 395019008367 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 395019008368 Methyltransferase domain; Region: Methyltransf_18; pfam12847 395019008369 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019008370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019008371 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 395019008372 Enoylreductase; Region: PKS_ER; smart00829 395019008373 NAD(P) binding site [chemical binding]; other site 395019008374 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 395019008375 KR domain; Region: KR; pfam08659 395019008376 putative NADP binding site [chemical binding]; other site 395019008377 active site 395019008378 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 395019008379 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 395019008380 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 395019008381 substrate-cofactor binding pocket; other site 395019008382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019008383 catalytic residue [active] 395019008384 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 395019008385 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 395019008386 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 395019008387 active site 395019008388 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 395019008389 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 395019008390 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 395019008391 active site 395019008392 catalytic residues [active] 395019008393 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 395019008394 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 395019008395 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 395019008396 Walker A/P-loop; other site 395019008397 ATP binding site [chemical binding]; other site 395019008398 Q-loop/lid; other site 395019008399 ABC transporter signature motif; other site 395019008400 Walker B; other site 395019008401 D-loop; other site 395019008402 H-loop/switch region; other site 395019008403 ABC-2 type transporter; Region: ABC2_membrane; cl17235 395019008404 polysaccharide export protein Wza; Provisional; Region: PRK15078 395019008405 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395019008406 SLBB domain; Region: SLBB; pfam10531 395019008407 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 395019008408 Transposase domain (DUF772); Region: DUF772; pfam05598 395019008409 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395019008410 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019008411 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 395019008412 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 395019008413 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 395019008414 active site 395019008415 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019008416 MULE transposase domain; Region: MULE; pfam10551 395019008417 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 395019008418 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 395019008419 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 395019008420 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 395019008421 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395019008422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019008423 NAD(P) binding site [chemical binding]; other site 395019008424 active site 395019008425 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 395019008426 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395019008427 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 395019008428 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 395019008429 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 395019008430 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 395019008431 ATP binding site [chemical binding]; other site 395019008432 Mg2+ binding site [ion binding]; other site 395019008433 G-X-G motif; other site 395019008434 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 395019008435 ATP binding site [chemical binding]; other site 395019008436 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 395019008437 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 395019008438 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 395019008439 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 395019008440 SnoaL-like domain; Region: SnoaL_3; pfam13474 395019008441 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 395019008442 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 395019008443 dimerization interface [polypeptide binding]; other site 395019008444 putative ATP binding site [chemical binding]; other site 395019008445 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 395019008446 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 395019008447 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 395019008448 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 395019008449 poly(A) polymerase; Region: pcnB; TIGR01942 395019008450 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 395019008451 active site 395019008452 NTP binding site [chemical binding]; other site 395019008453 metal binding triad [ion binding]; metal-binding site 395019008454 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 395019008455 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 395019008456 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 395019008457 catalytic center binding site [active] 395019008458 ATP binding site [chemical binding]; other site 395019008459 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 395019008460 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 395019008461 Substrate-binding site [chemical binding]; other site 395019008462 Substrate specificity [chemical binding]; other site 395019008463 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 395019008464 oligomerization interface [polypeptide binding]; other site 395019008465 active site 395019008466 metal binding site [ion binding]; metal-binding site 395019008467 chorismate binding enzyme; Region: Chorismate_bind; cl10555 395019008468 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 395019008469 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 395019008470 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 395019008471 homodimer interface [polypeptide binding]; other site 395019008472 substrate-cofactor binding pocket; other site 395019008473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019008474 catalytic residue [active] 395019008475 chaperone protein DnaJ; Provisional; Region: PRK10767 395019008476 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 395019008477 HSP70 interaction site [polypeptide binding]; other site 395019008478 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 395019008479 Zn binding sites [ion binding]; other site 395019008480 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 395019008481 dimer interface [polypeptide binding]; other site 395019008482 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 395019008483 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 395019008484 nucleotide binding site [chemical binding]; other site 395019008485 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 395019008486 catalytic residues [active] 395019008487 GrpE; Region: GrpE; pfam01025 395019008488 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 395019008489 dimer interface [polypeptide binding]; other site 395019008490 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 395019008491 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 395019008492 RNA binding surface [nucleotide binding]; other site 395019008493 ferrochelatase; Reviewed; Region: hemH; PRK00035 395019008494 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 395019008495 C-terminal domain interface [polypeptide binding]; other site 395019008496 active site 395019008497 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 395019008498 active site 395019008499 N-terminal domain interface [polypeptide binding]; other site 395019008500 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 395019008501 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 395019008502 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 395019008503 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 395019008504 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 395019008505 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 395019008506 Walker A/P-loop; other site 395019008507 ATP binding site [chemical binding]; other site 395019008508 Q-loop/lid; other site 395019008509 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 395019008510 ABC transporter signature motif; other site 395019008511 Walker B; other site 395019008512 D-loop; other site 395019008513 H-loop/switch region; other site 395019008514 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 395019008515 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395019008516 metal binding triad; other site 395019008517 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395019008518 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 395019008519 metal binding triad; other site 395019008520 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 395019008521 TIGR02099 family protein; Region: TIGR02099 395019008522 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 395019008523 nitrilase; Region: PLN02798 395019008524 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 395019008525 putative active site [active] 395019008526 catalytic triad [active] 395019008527 dimer interface [polypeptide binding]; other site 395019008528 protease TldD; Provisional; Region: tldD; PRK10735 395019008529 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 395019008530 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 395019008531 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 395019008532 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 395019008533 putative active site [active] 395019008534 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 395019008535 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 395019008536 heme-binding site [chemical binding]; other site 395019008537 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 395019008538 FAD binding pocket [chemical binding]; other site 395019008539 FAD binding motif [chemical binding]; other site 395019008540 phosphate binding motif [ion binding]; other site 395019008541 beta-alpha-beta structure motif; other site 395019008542 NAD binding pocket [chemical binding]; other site 395019008543 Heme binding pocket [chemical binding]; other site 395019008544 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 395019008545 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395019008546 FAD binding domain; Region: FAD_binding_4; pfam01565 395019008547 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 395019008548 FAD binding domain; Region: FAD_binding_4; pfam01565 395019008549 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 395019008550 FAD binding domain; Region: FAD_binding_4; pfam01565 395019008551 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 395019008552 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 395019008553 Cysteine-rich domain; Region: CCG; pfam02754 395019008554 Cysteine-rich domain; Region: CCG; pfam02754 395019008555 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 395019008556 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395019008557 catalytic residue [active] 395019008558 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 395019008559 pyrroline-5-carboxylate reductase; Region: PLN02688 395019008560 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 395019008561 UbiA prenyltransferase family; Region: UbiA; pfam01040 395019008562 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 395019008563 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 395019008564 dimerization interface [polypeptide binding]; other site 395019008565 DPS ferroxidase diiron center [ion binding]; other site 395019008566 ion pore; other site 395019008567 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 395019008568 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 395019008569 dimer interface [polypeptide binding]; other site 395019008570 active site 395019008571 heme binding site [chemical binding]; other site 395019008572 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 395019008573 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019008574 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019008575 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 395019008576 dimerization interface [polypeptide binding]; other site 395019008577 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 395019008578 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 395019008579 generic binding surface II; other site 395019008580 ssDNA binding site; other site 395019008581 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 395019008582 ATP binding site [chemical binding]; other site 395019008583 putative Mg++ binding site [ion binding]; other site 395019008584 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 395019008585 nucleotide binding region [chemical binding]; other site 395019008586 ATP-binding site [chemical binding]; other site 395019008587 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 395019008588 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 395019008589 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 395019008590 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 395019008591 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 395019008592 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 395019008593 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 395019008594 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395019008595 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 395019008596 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 395019008597 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 395019008598 Protein export membrane protein; Region: SecD_SecF; pfam02355 395019008599 citrate-proton symporter; Provisional; Region: PRK15075 395019008600 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 395019008601 putative substrate translocation pore; other site 395019008602 Uncharacterized conserved protein [Function unknown]; Region: COG2353 395019008603 YceI-like domain; Region: YceI; smart00867 395019008604 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 395019008605 Paraquat-inducible protein A; Region: PqiA; pfam04403 395019008606 Paraquat-inducible protein A; Region: PqiA; pfam04403 395019008607 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 395019008608 mce related protein; Region: MCE; pfam02470 395019008609 mce related protein; Region: MCE; pfam02470 395019008610 Protein of unknown function (DUF330); Region: DUF330; pfam03886 395019008611 Site-specific recombinase; Region: SpecificRecomb; pfam10136 395019008612 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 395019008613 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 395019008614 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 395019008615 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 395019008616 Predicted transcriptional regulator [Transcription]; Region: COG2378 395019008617 HTH domain; Region: HTH_11; pfam08279 395019008618 WYL domain; Region: WYL; pfam13280 395019008619 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 395019008620 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395019008621 putative active site [active] 395019008622 catalytic triad [active] 395019008623 putative dimer interface [polypeptide binding]; other site 395019008624 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019008625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019008626 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 395019008627 putative substrate binding pocket [chemical binding]; other site 395019008628 putative dimerization interface [polypeptide binding]; other site 395019008629 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 395019008630 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 395019008631 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 395019008632 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 395019008633 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 395019008634 ligand binding site [chemical binding]; other site 395019008635 homodimer interface [polypeptide binding]; other site 395019008636 NAD(P) binding site [chemical binding]; other site 395019008637 trimer interface B [polypeptide binding]; other site 395019008638 trimer interface A [polypeptide binding]; other site 395019008639 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 395019008640 nudix motif; other site 395019008641 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 395019008642 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 395019008643 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 395019008644 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 395019008645 active site 395019008646 FMN binding site [chemical binding]; other site 395019008647 substrate binding site [chemical binding]; other site 395019008648 3Fe-4S cluster binding site [ion binding]; other site 395019008649 putative glutathione S-transferase; Provisional; Region: PRK10357 395019008650 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 395019008651 putative C-terminal domain interface [polypeptide binding]; other site 395019008652 putative GSH binding site (G-site) [chemical binding]; other site 395019008653 putative dimer interface [polypeptide binding]; other site 395019008654 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 395019008655 dimer interface [polypeptide binding]; other site 395019008656 N-terminal domain interface [polypeptide binding]; other site 395019008657 putative substrate binding pocket (H-site) [chemical binding]; other site 395019008658 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 395019008659 proline aminopeptidase P II; Provisional; Region: PRK10879 395019008660 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 395019008661 active site 395019008662 hypothetical protein; Provisional; Region: PRK06996 395019008663 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395019008664 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 395019008665 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 395019008666 FMN binding site [chemical binding]; other site 395019008667 active site 395019008668 catalytic residues [active] 395019008669 substrate binding site [chemical binding]; other site 395019008670 DNA-binding protein Fis; Provisional; Region: PRK01905 395019008671 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 395019008672 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 395019008673 purine monophosphate binding site [chemical binding]; other site 395019008674 dimer interface [polypeptide binding]; other site 395019008675 putative catalytic residues [active] 395019008676 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 395019008677 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 395019008678 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 395019008679 active site 395019008680 putative DNA-binding cleft [nucleotide binding]; other site 395019008681 dimer interface [polypeptide binding]; other site 395019008682 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 395019008683 RuvA N terminal domain; Region: RuvA_N; pfam01330 395019008684 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 395019008685 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 395019008686 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 395019008687 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 395019008688 Walker A motif; other site 395019008689 ATP binding site [chemical binding]; other site 395019008690 Walker B motif; other site 395019008691 arginine finger; other site 395019008692 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 395019008693 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 395019008694 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 395019008695 catalytic core [active] 395019008696 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 395019008697 putative active site [active] 395019008698 dimerization interface [polypeptide binding]; other site 395019008699 putative tRNAtyr binding site [nucleotide binding]; other site 395019008700 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 395019008701 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 395019008702 active site 395019008703 HIGH motif; other site 395019008704 dimer interface [polypeptide binding]; other site 395019008705 KMSKS motif; other site 395019008706 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 395019008707 RNA binding surface [nucleotide binding]; other site 395019008708 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 395019008709 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 395019008710 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 395019008711 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 395019008712 23S rRNA interface [nucleotide binding]; other site 395019008713 L3 interface [polypeptide binding]; other site 395019008714 OsmC-like protein; Region: OsmC; cl00767 395019008715 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 395019008716 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 395019008717 active site 395019008718 substrate binding pocket [chemical binding]; other site 395019008719 dimer interface [polypeptide binding]; other site 395019008720 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 395019008721 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 395019008722 putative active site [active] 395019008723 putative dimer interface [polypeptide binding]; other site 395019008724 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 395019008725 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 395019008726 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 395019008727 Autotransporter beta-domain; Region: Autotransporter; smart00869 395019008728 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395019008729 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 395019008730 Walker A/P-loop; other site 395019008731 ATP binding site [chemical binding]; other site 395019008732 Q-loop/lid; other site 395019008733 ABC transporter signature motif; other site 395019008734 Walker B; other site 395019008735 D-loop; other site 395019008736 H-loop/switch region; other site 395019008737 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395019008738 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 395019008739 dimer interface [polypeptide binding]; other site 395019008740 conserved gate region; other site 395019008741 putative PBP binding loops; other site 395019008742 ABC-ATPase subunit interface; other site 395019008743 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395019008744 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 395019008745 dimer interface [polypeptide binding]; other site 395019008746 conserved gate region; other site 395019008747 putative PBP binding loops; other site 395019008748 ABC-ATPase subunit interface; other site 395019008749 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 395019008750 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 395019008751 substrate binding pocket [chemical binding]; other site 395019008752 membrane-bound complex binding site; other site 395019008753 hinge residues; other site 395019008754 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 395019008755 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 395019008756 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 395019008757 NAD(P) binding site [chemical binding]; other site 395019008758 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019008759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019008760 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 395019008761 dimerization interface [polypeptide binding]; other site 395019008762 adenylosuccinate lyase; Provisional; Region: PRK09285 395019008763 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 395019008764 tetramer interface [polypeptide binding]; other site 395019008765 active site 395019008766 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395019008767 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019008768 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 395019008769 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 395019008770 ATP-binding site [chemical binding]; other site 395019008771 Gluconate-6-phosphate binding site [chemical binding]; other site 395019008772 Shikimate kinase; Region: SKI; pfam01202 395019008773 fructuronate transporter; Provisional; Region: PRK10034; cl15264 395019008774 GntP family permease; Region: GntP_permease; pfam02447 395019008775 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 395019008776 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 395019008777 active site 395019008778 intersubunit interface [polypeptide binding]; other site 395019008779 catalytic residue [active] 395019008780 phosphogluconate dehydratase; Validated; Region: PRK09054 395019008781 6-phosphogluconate dehydratase; Region: edd; TIGR01196 395019008782 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395019008783 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395019008784 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 395019008785 putative active site [active] 395019008786 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019008787 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019008788 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395019008789 HTH-like domain; Region: HTH_21; pfam13276 395019008790 Integrase core domain; Region: rve; pfam00665 395019008791 Integrase core domain; Region: rve_2; pfam13333 395019008792 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 395019008793 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 395019008794 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 395019008795 putative catalytic cysteine [active] 395019008796 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 395019008797 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 395019008798 Lipopolysaccharide-assembly; Region: LptE; cl01125 395019008799 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 395019008800 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 395019008801 HIGH motif; other site 395019008802 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 395019008803 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 395019008804 active site 395019008805 KMSKS motif; other site 395019008806 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 395019008807 tRNA binding surface [nucleotide binding]; other site 395019008808 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 395019008809 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 395019008810 TolR protein; Region: tolR; TIGR02801 395019008811 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395019008812 dihydrodipicolinate reductase; Provisional; Region: PRK00048 395019008813 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 395019008814 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 395019008815 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 395019008816 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 395019008817 ferric uptake regulator; Provisional; Region: fur; PRK09462 395019008818 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 395019008819 metal binding site 2 [ion binding]; metal-binding site 395019008820 putative DNA binding helix; other site 395019008821 metal binding site 1 [ion binding]; metal-binding site 395019008822 dimer interface [polypeptide binding]; other site 395019008823 structural Zn2+ binding site [ion binding]; other site 395019008824 ureidoglycolate hydrolase; Provisional; Region: PRK13395 395019008825 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 395019008826 allantoicase; Provisional; Region: PRK13257 395019008827 Allantoicase repeat; Region: Allantoicase; pfam03561 395019008828 Allantoicase repeat; Region: Allantoicase; pfam03561 395019008829 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 395019008830 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 395019008831 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395019008832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019008833 DNA-binding site [nucleotide binding]; DNA binding site 395019008834 FCD domain; Region: FCD; pfam07729 395019008835 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 395019008836 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019008837 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 395019008838 dimerization interface [polypeptide binding]; other site 395019008839 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019008840 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 395019008841 enoyl-CoA hydratase; Provisional; Region: PRK06688 395019008842 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 395019008843 substrate binding site [chemical binding]; other site 395019008844 oxyanion hole (OAH) forming residues; other site 395019008845 trimer interface [polypeptide binding]; other site 395019008846 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395019008847 MarR family; Region: MarR_2; pfam12802 395019008848 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 395019008849 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 395019008850 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 395019008851 transketolase; Reviewed; Region: PRK12753 395019008852 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 395019008853 TPP-binding site [chemical binding]; other site 395019008854 dimer interface [polypeptide binding]; other site 395019008855 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 395019008856 PYR/PP interface [polypeptide binding]; other site 395019008857 dimer interface [polypeptide binding]; other site 395019008858 TPP binding site [chemical binding]; other site 395019008859 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395019008860 spermidine synthase; Provisional; Region: PRK00811 395019008861 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 395019008862 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 395019008863 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 395019008864 putative dimer interface [polypeptide binding]; other site 395019008865 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019008866 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 395019008867 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 395019008868 putative RNAase interaction site [polypeptide binding]; other site 395019008869 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 395019008870 active site 395019008871 barstar interaction site; other site 395019008872 malic enzyme; Reviewed; Region: PRK12862 395019008873 Malic enzyme, N-terminal domain; Region: malic; pfam00390 395019008874 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 395019008875 putative NAD(P) binding site [chemical binding]; other site 395019008876 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 395019008877 thiamine monophosphate kinase; Provisional; Region: PRK05731 395019008878 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 395019008879 ATP binding site [chemical binding]; other site 395019008880 dimerization interface [polypeptide binding]; other site 395019008881 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 395019008882 tetramer interfaces [polypeptide binding]; other site 395019008883 binuclear metal-binding site [ion binding]; other site 395019008884 Competence-damaged protein; Region: CinA; pfam02464 395019008885 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 395019008886 active site 395019008887 dimer interface [polypeptide binding]; other site 395019008888 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 395019008889 active site 395019008890 catalytic residues [active] 395019008891 short chain dehydrogenase; Provisional; Region: PRK12939 395019008892 classical (c) SDRs; Region: SDR_c; cd05233 395019008893 NAD(P) binding site [chemical binding]; other site 395019008894 active site 395019008895 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019008896 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019008897 TM-ABC transporter signature motif; other site 395019008898 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 395019008899 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 395019008900 Walker A/P-loop; other site 395019008901 ATP binding site [chemical binding]; other site 395019008902 Q-loop/lid; other site 395019008903 ABC transporter signature motif; other site 395019008904 Walker B; other site 395019008905 D-loop; other site 395019008906 H-loop/switch region; other site 395019008907 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 395019008908 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 395019008909 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 395019008910 ligand binding site [chemical binding]; other site 395019008911 short chain dehydrogenase; Provisional; Region: PRK07063 395019008912 classical (c) SDRs; Region: SDR_c; cd05233 395019008913 NAD(P) binding site [chemical binding]; other site 395019008914 active site 395019008915 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 395019008916 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 395019008917 active site 395019008918 intersubunit interface [polypeptide binding]; other site 395019008919 catalytic residue [active] 395019008920 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 395019008921 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 395019008922 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019008923 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395019008924 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019008925 EF-hand domain pair; Region: EF_hand_5; pfam13499 395019008926 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 395019008927 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 395019008928 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 395019008929 Transglycosylase; Region: Transgly; cl17702 395019008930 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 395019008931 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 395019008932 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 395019008933 shikimate binding site; other site 395019008934 NAD(P) binding site [chemical binding]; other site 395019008935 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 395019008936 RNB domain; Region: RNB; pfam00773 395019008937 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 395019008938 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019008939 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 395019008940 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395019008941 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395019008942 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395019008943 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 395019008944 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019008945 catalytic residues [active] 395019008946 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 395019008947 Dehydroquinase class II; Region: DHquinase_II; pfam01220 395019008948 active site 395019008949 trimer interface [polypeptide binding]; other site 395019008950 dimer interface [polypeptide binding]; other site 395019008951 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 395019008952 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 395019008953 carboxyltransferase (CT) interaction site; other site 395019008954 biotinylation site [posttranslational modification]; other site 395019008955 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 395019008956 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395019008957 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 395019008958 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 395019008959 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 395019008960 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395019008961 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 395019008962 S-adenosylmethionine binding site [chemical binding]; other site 395019008963 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 395019008964 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 395019008965 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 395019008966 dimer interface [polypeptide binding]; other site 395019008967 catalytic triad [active] 395019008968 peroxidatic and resolving cysteines [active] 395019008969 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 395019008970 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395019008971 substrate binding site [chemical binding]; other site 395019008972 ATP binding site [chemical binding]; other site 395019008973 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 395019008974 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 395019008975 dimer interface [polypeptide binding]; other site 395019008976 putative radical transfer pathway; other site 395019008977 diiron center [ion binding]; other site 395019008978 tyrosyl radical; other site 395019008979 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 395019008980 ATP cone domain; Region: ATP-cone; pfam03477 395019008981 Class I ribonucleotide reductase; Region: RNR_I; cd01679 395019008982 active site 395019008983 dimer interface [polypeptide binding]; other site 395019008984 catalytic residues [active] 395019008985 effector binding site; other site 395019008986 R2 peptide binding site; other site 395019008987 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 395019008988 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 395019008989 amidase catalytic site [active] 395019008990 Zn binding residues [ion binding]; other site 395019008991 substrate binding site [chemical binding]; other site 395019008992 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 395019008993 signal recognition particle protein; Provisional; Region: PRK10867 395019008994 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 395019008995 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 395019008996 P loop; other site 395019008997 GTP binding site [chemical binding]; other site 395019008998 Signal peptide binding domain; Region: SRP_SPB; pfam02978 395019008999 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395019009000 active site 395019009001 MarC family integral membrane protein; Region: MarC; cl00919 395019009002 prolyl-tRNA synthetase; Provisional; Region: PRK09194 395019009003 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 395019009004 dimer interface [polypeptide binding]; other site 395019009005 motif 1; other site 395019009006 active site 395019009007 motif 2; other site 395019009008 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 395019009009 putative deacylase active site [active] 395019009010 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 395019009011 active site 395019009012 motif 3; other site 395019009013 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 395019009014 anticodon binding site; other site 395019009015 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 395019009016 putative active site [active] 395019009017 Ap4A binding site [chemical binding]; other site 395019009018 nudix motif; other site 395019009019 putative metal binding site [ion binding]; other site 395019009020 CNP1-like family; Region: CNP1; pfam08750 395019009021 gamma-glutamyl kinase; Provisional; Region: PRK05429 395019009022 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 395019009023 nucleotide binding site [chemical binding]; other site 395019009024 homotetrameric interface [polypeptide binding]; other site 395019009025 putative phosphate binding site [ion binding]; other site 395019009026 putative allosteric binding site; other site 395019009027 PUA domain; Region: PUA; pfam01472 395019009028 GTPase CgtA; Reviewed; Region: obgE; PRK12299 395019009029 GTP1/OBG; Region: GTP1_OBG; pfam01018 395019009030 Obg GTPase; Region: Obg; cd01898 395019009031 G1 box; other site 395019009032 GTP/Mg2+ binding site [chemical binding]; other site 395019009033 Switch I region; other site 395019009034 G2 box; other site 395019009035 G3 box; other site 395019009036 Switch II region; other site 395019009037 G4 box; other site 395019009038 G5 box; other site 395019009039 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 395019009040 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 395019009041 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 395019009042 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 395019009043 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395019009044 substrate binding pocket [chemical binding]; other site 395019009045 chain length determination region; other site 395019009046 substrate-Mg2+ binding site; other site 395019009047 catalytic residues [active] 395019009048 aspartate-rich region 1; other site 395019009049 active site lid residues [active] 395019009050 aspartate-rich region 2; other site 395019009051 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 395019009052 active site 395019009053 catalytic residues [active] 395019009054 DNA binding site [nucleotide binding] 395019009055 Int/Topo IB signature motif; other site 395019009056 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 395019009057 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395019009058 Walker A motif; other site 395019009059 ATP binding site [chemical binding]; other site 395019009060 Walker B motif; other site 395019009061 arginine finger; other site 395019009062 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 395019009063 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 395019009064 active site 395019009065 catalytic residues [active] 395019009066 DNA binding site [nucleotide binding] 395019009067 Int/Topo IB signature motif; other site 395019009068 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 395019009069 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 395019009070 Domain of unknown function DUF21; Region: DUF21; pfam01595 395019009071 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 395019009072 Transporter associated domain; Region: CorC_HlyC; smart01091 395019009073 Type II/IV secretion system protein; Region: T2SE; pfam00437 395019009074 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 395019009075 Walker A motif; other site 395019009076 ATP binding site [chemical binding]; other site 395019009077 Walker B motif; other site 395019009078 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 395019009079 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395019009080 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 395019009081 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 395019009082 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 395019009083 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 395019009084 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 395019009085 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 395019009086 CoA-binding site [chemical binding]; other site 395019009087 ATP-binding [chemical binding]; other site 395019009088 hypothetical protein; Provisional; Region: PRK05287 395019009089 Domain of unknown function (DUF329); Region: DUF329; pfam03884 395019009090 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 395019009091 active site 395019009092 8-oxo-dGMP binding site [chemical binding]; other site 395019009093 nudix motif; other site 395019009094 metal binding site [ion binding]; metal-binding site 395019009095 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 395019009096 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 395019009097 Walker A motif; other site 395019009098 ATP binding site [chemical binding]; other site 395019009099 Walker B motif; other site 395019009100 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 395019009101 heterotetramer interface [polypeptide binding]; other site 395019009102 active site pocket [active] 395019009103 cleavage site 395019009104 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 395019009105 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 395019009106 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 395019009107 SEC-C motif; Region: SEC-C; pfam02810 395019009108 Protein of unknown function (DUF721); Region: DUF721; pfam05258 395019009109 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 395019009110 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 395019009111 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 395019009112 catalytic triad [active] 395019009113 dimer interface [polypeptide binding]; other site 395019009114 cell division protein FtsZ; Validated; Region: PRK09330 395019009115 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 395019009116 nucleotide binding site [chemical binding]; other site 395019009117 SulA interaction site; other site 395019009118 cell division protein FtsA; Region: ftsA; TIGR01174 395019009119 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 395019009120 nucleotide binding site [chemical binding]; other site 395019009121 Cell division protein FtsA; Region: FtsA; pfam14450 395019009122 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 395019009123 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 395019009124 Cell division protein FtsQ; Region: FtsQ; pfam03799 395019009125 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 395019009126 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 395019009127 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395019009128 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 395019009129 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395019009130 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395019009131 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395019009132 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 395019009133 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 395019009134 active site 395019009135 homodimer interface [polypeptide binding]; other site 395019009136 cell division protein FtsW; Region: ftsW; TIGR02614 395019009137 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 395019009138 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395019009139 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395019009140 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 395019009141 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 395019009142 Mg++ binding site [ion binding]; other site 395019009143 putative catalytic motif [active] 395019009144 putative substrate binding site [chemical binding]; other site 395019009145 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 395019009146 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 395019009147 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395019009148 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395019009149 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 395019009150 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395019009151 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395019009152 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 395019009153 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 395019009154 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 395019009155 Cell division protein FtsL; Region: FtsL; cl11433 395019009156 MraW methylase family; Region: Methyltransf_5; cl17771 395019009157 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 395019009158 cell division protein MraZ; Reviewed; Region: PRK00326 395019009159 MraZ protein; Region: MraZ; pfam02381 395019009160 MraZ protein; Region: MraZ; pfam02381 395019009161 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 395019009162 diiron binding motif [ion binding]; other site 395019009163 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019009164 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019009165 trimer interface [polypeptide binding]; other site 395019009166 eyelet of channel; other site 395019009167 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 395019009168 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 395019009169 acyl-activating enzyme (AAE) consensus motif; other site 395019009170 putative AMP binding site [chemical binding]; other site 395019009171 putative active site [active] 395019009172 putative CoA binding site [chemical binding]; other site 395019009173 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 395019009174 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 395019009175 putative [4Fe-4S] binding site [ion binding]; other site 395019009176 putative molybdopterin cofactor binding site [chemical binding]; other site 395019009177 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 395019009178 putative molybdopterin cofactor binding site; other site 395019009179 enoyl-CoA hydratase; Provisional; Region: PRK05862 395019009180 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 395019009181 substrate binding site [chemical binding]; other site 395019009182 oxyanion hole (OAH) forming residues; other site 395019009183 trimer interface [polypeptide binding]; other site 395019009184 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 395019009185 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395019009186 NAD(P) binding site [chemical binding]; other site 395019009187 catalytic residues [active] 395019009188 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 395019009189 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 395019009190 dimer interface [polypeptide binding]; other site 395019009191 active site 395019009192 enoyl-CoA hydratase; Provisional; Region: PRK08140 395019009193 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 395019009194 substrate binding site [chemical binding]; other site 395019009195 oxyanion hole (OAH) forming residues; other site 395019009196 trimer interface [polypeptide binding]; other site 395019009197 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 395019009198 CoenzymeA binding site [chemical binding]; other site 395019009199 subunit interaction site [polypeptide binding]; other site 395019009200 PHB binding site; other site 395019009201 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 395019009202 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 395019009203 active site 395019009204 AMP binding site [chemical binding]; other site 395019009205 homodimer interface [polypeptide binding]; other site 395019009206 acyl-activating enzyme (AAE) consensus motif; other site 395019009207 CoA binding site [chemical binding]; other site 395019009208 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 395019009209 MltA specific insert domain; Region: MltA; smart00925 395019009210 3D domain; Region: 3D; pfam06725 395019009211 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 395019009212 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 395019009213 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 395019009214 substrate binding site [chemical binding]; other site 395019009215 hexamer interface [polypeptide binding]; other site 395019009216 metal binding site [ion binding]; metal-binding site 395019009217 phosphoglycolate phosphatase; Provisional; Region: PRK13222 395019009218 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 395019009219 motif II; other site 395019009220 anthranilate synthase component I; Provisional; Region: PRK13565 395019009221 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 395019009222 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 395019009223 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 395019009224 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 395019009225 glutamine binding [chemical binding]; other site 395019009226 catalytic triad [active] 395019009227 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 395019009228 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 395019009229 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 395019009230 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 395019009231 active site 395019009232 ribulose/triose binding site [chemical binding]; other site 395019009233 phosphate binding site [ion binding]; other site 395019009234 substrate (anthranilate) binding pocket [chemical binding]; other site 395019009235 product (indole) binding pocket [chemical binding]; other site 395019009236 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 395019009237 putative active site [active] 395019009238 putative triphosphate binding site [ion binding]; other site 395019009239 putative metal binding residues [ion binding]; other site 395019009240 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 395019009241 ligand binding site [chemical binding]; other site 395019009242 active site 395019009243 UGI interface [polypeptide binding]; other site 395019009244 catalytic site [active] 395019009245 azoreductase; Reviewed; Region: PRK00170 395019009246 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019009247 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 395019009248 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 395019009249 PDZ domain; Region: PDZ_2; pfam13180 395019009250 protein binding site [polypeptide binding]; other site 395019009251 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 395019009252 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 395019009253 dimerization domain [polypeptide binding]; other site 395019009254 dimer interface [polypeptide binding]; other site 395019009255 catalytic residues [active] 395019009256 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 395019009257 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 395019009258 GTP-binding protein YchF; Reviewed; Region: PRK09601 395019009259 YchF GTPase; Region: YchF; cd01900 395019009260 G1 box; other site 395019009261 GTP/Mg2+ binding site [chemical binding]; other site 395019009262 Switch I region; other site 395019009263 G2 box; other site 395019009264 Switch II region; other site 395019009265 G3 box; other site 395019009266 G4 box; other site 395019009267 G5 box; other site 395019009268 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 395019009269 Radical SAM superfamily; Region: Radical_SAM; pfam04055 395019009270 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 395019009271 FeS/SAM binding site; other site 395019009272 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 395019009273 Cupin superfamily protein; Region: Cupin_4; pfam08007 395019009274 Cupin-like domain; Region: Cupin_8; pfam13621 395019009275 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 395019009276 Protein of unknown function (DUF419); Region: DUF419; cl15265 395019009277 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 395019009278 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 395019009279 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019009280 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019009281 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019009282 dimerization interface [polypeptide binding]; other site 395019009283 substrate binding pocket [chemical binding]; other site 395019009284 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 395019009285 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 395019009286 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019009287 Walker A/P-loop; other site 395019009288 ATP binding site [chemical binding]; other site 395019009289 Q-loop/lid; other site 395019009290 ABC transporter signature motif; other site 395019009291 Walker B; other site 395019009292 D-loop; other site 395019009293 H-loop/switch region; other site 395019009294 ABC transporter; Region: ABC_tran_2; pfam12848 395019009295 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 395019009296 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 395019009297 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 395019009298 Isochorismatase family; Region: Isochorismatase; pfam00857 395019009299 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 395019009300 catalytic triad [active] 395019009301 conserved cis-peptide bond; other site 395019009302 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395019009303 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395019009304 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 395019009305 active site 395019009306 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395019009307 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 395019009308 active site 395019009309 intermolecular recognition site; other site 395019009310 dimerization interface [polypeptide binding]; other site 395019009311 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 395019009312 DNA binding site [nucleotide binding] 395019009313 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 395019009314 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 395019009315 tRNA; other site 395019009316 putative tRNA binding site [nucleotide binding]; other site 395019009317 putative NADP binding site [chemical binding]; other site 395019009318 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 395019009319 peptide chain release factor 1; Validated; Region: prfA; PRK00591 395019009320 This domain is found in peptide chain release factors; Region: PCRF; smart00937 395019009321 RF-1 domain; Region: RF-1; pfam00472 395019009322 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 395019009323 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 395019009324 S-adenosylmethionine binding site [chemical binding]; other site 395019009325 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 395019009326 putative GSH binding site [chemical binding]; other site 395019009327 catalytic residues [active] 395019009328 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 395019009329 Flavoprotein; Region: Flavoprotein; pfam02441 395019009330 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 395019009331 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 395019009332 putative active site [active] 395019009333 metal binding site [ion binding]; metal-binding site 395019009334 amino acid transporter; Region: 2A0306; TIGR00909 395019009335 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 395019009336 DNA-binding site [nucleotide binding]; DNA binding site 395019009337 RNA-binding motif; other site 395019009338 putative chaperone; Provisional; Region: PRK11678 395019009339 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 395019009340 nucleotide binding site [chemical binding]; other site 395019009341 putative NEF/HSP70 interaction site [polypeptide binding]; other site 395019009342 SBD interface [polypeptide binding]; other site 395019009343 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 395019009344 putative FMN binding site [chemical binding]; other site 395019009345 D-galactonate transporter; Region: 2A0114; TIGR00893 395019009346 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 395019009347 putative substrate translocation pore; other site 395019009348 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019009349 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019009350 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 395019009351 Methyltransferase domain; Region: Methyltransf_32; pfam13679 395019009352 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019009353 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 395019009354 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 395019009355 S-adenosylmethionine binding site [chemical binding]; other site 395019009356 Water Stress and Hypersensitive response; Region: WHy; smart00769 395019009357 Peptidase family M1; Region: Peptidase_M1; pfam01433 395019009358 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 395019009359 Zn binding site [ion binding]; other site 395019009360 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 395019009361 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 395019009362 Cl binding site [ion binding]; other site 395019009363 oligomer interface [polypeptide binding]; other site 395019009364 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 395019009365 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 395019009366 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 395019009367 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 395019009368 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 395019009369 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 395019009370 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 395019009371 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395019009372 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019009373 ligand binding site [chemical binding]; other site 395019009374 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 395019009375 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 395019009376 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 395019009377 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 395019009378 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 395019009379 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 395019009380 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 395019009381 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 395019009382 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 395019009383 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 395019009384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 395019009385 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 395019009386 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 395019009387 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 395019009388 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 395019009389 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 395019009390 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 395019009391 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 395019009392 Clp amino terminal domain; Region: Clp_N; pfam02861 395019009393 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 395019009394 Walker A motif; other site 395019009395 ATP binding site [chemical binding]; other site 395019009396 Walker B motif; other site 395019009397 arginine finger; other site 395019009398 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 395019009399 Walker A motif; other site 395019009400 ATP binding site [chemical binding]; other site 395019009401 Walker B motif; other site 395019009402 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 395019009403 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 395019009404 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 395019009405 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 395019009406 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 395019009407 Protein of unknown function (DUF796); Region: DUF796; pfam05638 395019009408 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 395019009409 Protein of unknown function (DUF877); Region: DUF877; pfam05943 395019009410 Protein of unknown function (DUF770); Region: DUF770; pfam05591 395019009411 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 395019009412 binding surface 395019009413 TPR motif; other site 395019009414 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 395019009415 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 395019009416 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 395019009417 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 395019009418 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019009419 MULE transposase domain; Region: MULE; pfam10551 395019009420 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395019009421 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 395019009422 putative C-terminal domain interface [polypeptide binding]; other site 395019009423 putative GSH binding site (G-site) [chemical binding]; other site 395019009424 putative dimer interface [polypeptide binding]; other site 395019009425 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 395019009426 dimer interface [polypeptide binding]; other site 395019009427 N-terminal domain interface [polypeptide binding]; other site 395019009428 putative substrate binding pocket (H-site) [chemical binding]; other site 395019009429 HTH-like domain; Region: HTH_21; pfam13276 395019009430 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395019009431 Integrase core domain; Region: rve; pfam00665 395019009432 Integrase core domain; Region: rve_2; pfam13333 395019009433 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019009434 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019009435 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019009436 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 395019009437 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395019009438 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395019009439 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 395019009440 dimer interface [polypeptide binding]; other site 395019009441 active site 395019009442 catalytic residue [active] 395019009443 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 395019009444 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019009445 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 395019009446 dimerization interface [polypeptide binding]; other site 395019009447 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019009448 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 395019009449 putative substrate translocation pore; other site 395019009450 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 395019009451 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 395019009452 N-terminal plug; other site 395019009453 ligand-binding site [chemical binding]; other site 395019009454 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 395019009455 C-terminal domain interface [polypeptide binding]; other site 395019009456 GSH binding site (G-site) [chemical binding]; other site 395019009457 dimer interface [polypeptide binding]; other site 395019009458 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395019009459 N-terminal domain interface [polypeptide binding]; other site 395019009460 dimer interface [polypeptide binding]; other site 395019009461 substrate binding pocket (H-site) [chemical binding]; other site 395019009462 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019009463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019009464 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019009465 dimerization interface [polypeptide binding]; other site 395019009466 substrate binding pocket [chemical binding]; other site 395019009467 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395019009468 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395019009469 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019009470 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019009471 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 395019009472 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 395019009473 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 395019009474 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 395019009475 catalytic loop [active] 395019009476 iron binding site [ion binding]; other site 395019009477 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395019009478 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 395019009479 Phosphoesterase family; Region: Phosphoesterase; pfam04185 395019009480 Domain of unknown function (DUF756); Region: DUF756; pfam05506 395019009481 Domain of unknown function (DUF756); Region: DUF756; pfam05506 395019009482 Serine hydrolase; Region: Ser_hydrolase; pfam06821 395019009483 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019009484 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 395019009485 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019009486 putative metal binding site [ion binding]; other site 395019009487 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 395019009488 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 395019009489 putative ligand binding site [chemical binding]; other site 395019009490 NAD binding site [chemical binding]; other site 395019009491 dimerization interface [polypeptide binding]; other site 395019009492 catalytic site [active] 395019009493 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 395019009494 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 395019009495 active site 395019009496 catalytic residues [active] 395019009497 metal binding site [ion binding]; metal-binding site 395019009498 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 395019009499 putative deacylase active site [active] 395019009500 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 395019009501 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395019009502 EamA-like transporter family; Region: EamA; pfam00892 395019009503 EamA-like transporter family; Region: EamA; pfam00892 395019009504 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 395019009505 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 395019009506 dimerization interface [polypeptide binding]; other site 395019009507 putative DNA binding site [nucleotide binding]; other site 395019009508 putative Zn2+ binding site [ion binding]; other site 395019009509 AsnC family; Region: AsnC_trans_reg; pfam01037 395019009510 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 395019009511 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 395019009512 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 395019009513 FMN binding site [chemical binding]; other site 395019009514 substrate binding site [chemical binding]; other site 395019009515 putative catalytic residue [active] 395019009516 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019009517 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019009518 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 395019009519 putative effector binding pocket; other site 395019009520 dimerization interface [polypeptide binding]; other site 395019009521 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019009522 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019009523 eyelet of channel; other site 395019009524 trimer interface [polypeptide binding]; other site 395019009525 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 395019009526 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 395019009527 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 395019009528 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 395019009529 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019009530 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019009531 metal binding site [ion binding]; metal-binding site 395019009532 active site 395019009533 I-site; other site 395019009534 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395019009535 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395019009536 DNA binding site [nucleotide binding] 395019009537 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395019009538 ligand binding site [chemical binding]; other site 395019009539 dimerization interface [polypeptide binding]; other site 395019009540 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 395019009541 dimerization interface [polypeptide binding]; other site 395019009542 putative active cleft [active] 395019009543 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 395019009544 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 395019009545 putative substrate binding site [chemical binding]; other site 395019009546 putative ATP binding site [chemical binding]; other site 395019009547 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 395019009548 Uncharacterized conserved protein [Function unknown]; Region: COG1565 395019009549 Dihydroneopterin aldolase; Region: FolB; smart00905 395019009550 active site 395019009551 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 395019009552 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 395019009553 Ligand Binding Site [chemical binding]; other site 395019009554 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 395019009555 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 395019009556 Substrate binding site; other site 395019009557 Mg++ binding site; other site 395019009558 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 395019009559 active site 395019009560 substrate binding site [chemical binding]; other site 395019009561 CoA binding site [chemical binding]; other site 395019009562 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 395019009563 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 395019009564 glutaminase active site [active] 395019009565 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 395019009566 dimer interface [polypeptide binding]; other site 395019009567 active site 395019009568 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 395019009569 dimer interface [polypeptide binding]; other site 395019009570 active site 395019009571 Predicted transcriptional regulator [Transcription]; Region: COG2944 395019009572 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 395019009573 non-specific DNA binding site [nucleotide binding]; other site 395019009574 salt bridge; other site 395019009575 sequence-specific DNA binding site [nucleotide binding]; other site 395019009576 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 395019009577 Iron permease FTR1 family; Region: FTR1; cl00475 395019009578 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 395019009579 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 395019009580 metal-binding site [ion binding] 395019009581 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 395019009582 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 395019009583 NAD(P) binding site [chemical binding]; other site 395019009584 catalytic residues [active] 395019009585 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 395019009586 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 395019009587 non-specific DNA binding site [nucleotide binding]; other site 395019009588 salt bridge; other site 395019009589 sequence-specific DNA binding site [nucleotide binding]; other site 395019009590 Cupin domain; Region: Cupin_2; pfam07883 395019009591 Peptidase C26; Region: Peptidase_C26; pfam07722 395019009592 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 395019009593 catalytic triad [active] 395019009594 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 395019009595 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395019009596 putative aminotransferase; Validated; Region: PRK07480 395019009597 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 395019009598 inhibitor-cofactor binding pocket; inhibition site 395019009599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019009600 catalytic residue [active] 395019009601 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 395019009602 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395019009603 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019009604 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 395019009605 Walker A/P-loop; other site 395019009606 ATP binding site [chemical binding]; other site 395019009607 Q-loop/lid; other site 395019009608 ABC transporter signature motif; other site 395019009609 Walker B; other site 395019009610 D-loop; other site 395019009611 H-loop/switch region; other site 395019009612 TOBE domain; Region: TOBE_2; pfam08402 395019009613 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 395019009614 dimer interface [polypeptide binding]; other site 395019009615 conserved gate region; other site 395019009616 putative PBP binding loops; other site 395019009617 ABC-ATPase subunit interface; other site 395019009618 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395019009619 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 395019009620 dimer interface [polypeptide binding]; other site 395019009621 conserved gate region; other site 395019009622 putative PBP binding loops; other site 395019009623 ABC-ATPase subunit interface; other site 395019009624 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 395019009625 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 395019009626 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395019009627 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 395019009628 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395019009629 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019009630 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 395019009631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 395019009632 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 395019009633 glutathione reductase; Validated; Region: PRK06116 395019009634 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019009635 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395019009636 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019009637 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019009638 trimer interface [polypeptide binding]; other site 395019009639 eyelet of channel; other site 395019009640 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 395019009641 Chromate transporter; Region: Chromate_transp; pfam02417 395019009642 Chromate transporter; Region: Chromate_transp; pfam02417 395019009643 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019009644 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019009645 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019009646 dimerization interface [polypeptide binding]; other site 395019009647 substrate binding pocket [chemical binding]; other site 395019009648 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 395019009649 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 395019009650 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 395019009651 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 395019009652 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 395019009653 Flagellar regulator YcgR; Region: YcgR; pfam07317 395019009654 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 395019009655 PilZ domain; Region: PilZ; pfam07238 395019009656 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 395019009657 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 395019009658 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 395019009659 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 395019009660 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 395019009661 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 395019009662 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 395019009663 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 395019009664 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395019009665 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 395019009666 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 395019009667 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395019009668 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 395019009669 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 395019009670 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395019009671 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 395019009672 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 395019009673 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 395019009674 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 395019009675 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 395019009676 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 395019009677 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 395019009678 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 395019009679 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 395019009680 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 395019009681 SAF-like; Region: SAF_2; pfam13144 395019009682 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 395019009683 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 395019009684 FlgN protein; Region: FlgN; pfam05130 395019009685 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395019009686 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395019009687 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 395019009688 active site 395019009689 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 395019009690 sequence-specific DNA binding site [nucleotide binding]; other site 395019009691 salt bridge; other site 395019009692 Cupin domain; Region: Cupin_2; pfam07883 395019009693 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 395019009694 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 395019009695 active site 395019009696 NTP binding site [chemical binding]; other site 395019009697 metal binding triad [ion binding]; metal-binding site 395019009698 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 395019009699 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 395019009700 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395019009701 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 395019009702 putative C-terminal domain interface [polypeptide binding]; other site 395019009703 putative GSH binding site (G-site) [chemical binding]; other site 395019009704 putative dimer interface [polypeptide binding]; other site 395019009705 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 395019009706 putative N-terminal domain interface [polypeptide binding]; other site 395019009707 putative dimer interface [polypeptide binding]; other site 395019009708 putative substrate binding pocket (H-site) [chemical binding]; other site 395019009709 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 395019009710 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 395019009711 putative NAD(P) binding site [chemical binding]; other site 395019009712 active site 395019009713 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395019009714 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 395019009715 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395019009716 catalytic residue [active] 395019009717 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 395019009718 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 395019009719 MarR family; Region: MarR_2; cl17246 395019009720 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019009721 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 395019009722 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 395019009723 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 395019009724 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 395019009725 putative active site [active] 395019009726 TraB family; Region: TraB; pfam01963 395019009727 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 395019009728 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395019009729 Walker A/P-loop; other site 395019009730 ATP binding site [chemical binding]; other site 395019009731 Q-loop/lid; other site 395019009732 ABC transporter signature motif; other site 395019009733 Walker B; other site 395019009734 D-loop; other site 395019009735 H-loop/switch region; other site 395019009736 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 395019009737 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395019009738 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395019009739 Walker A/P-loop; other site 395019009740 ATP binding site [chemical binding]; other site 395019009741 Q-loop/lid; other site 395019009742 ABC transporter signature motif; other site 395019009743 Walker B; other site 395019009744 D-loop; other site 395019009745 H-loop/switch region; other site 395019009746 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395019009747 dipeptide transporter; Provisional; Region: PRK10913 395019009748 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 395019009749 dimer interface [polypeptide binding]; other site 395019009750 conserved gate region; other site 395019009751 putative PBP binding loops; other site 395019009752 ABC-ATPase subunit interface; other site 395019009753 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395019009754 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 395019009755 dimer interface [polypeptide binding]; other site 395019009756 conserved gate region; other site 395019009757 putative PBP binding loops; other site 395019009758 ABC-ATPase subunit interface; other site 395019009759 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395019009760 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 395019009761 peptide binding site [polypeptide binding]; other site 395019009762 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 395019009763 citrate-proton symporter; Provisional; Region: PRK15075 395019009764 putative substrate translocation pore; other site 395019009765 High potential iron-sulfur protein; Region: HIPIP; pfam01355 395019009766 Predicted dehydrogenase [General function prediction only]; Region: COG0579 395019009767 hydroxyglutarate oxidase; Provisional; Region: PRK11728 395019009768 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 395019009769 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019009770 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395019009771 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019009772 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 395019009773 putative FMN binding site [chemical binding]; other site 395019009774 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395019009775 putative catalytic site [active] 395019009776 putative phosphate binding site [ion binding]; other site 395019009777 putative metal binding site [ion binding]; other site 395019009778 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395019009779 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 395019009780 FAD binding pocket [chemical binding]; other site 395019009781 FAD binding motif [chemical binding]; other site 395019009782 phosphate binding motif [ion binding]; other site 395019009783 beta-alpha-beta structure motif; other site 395019009784 NAD binding pocket [chemical binding]; other site 395019009785 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 395019009786 Histidine kinase; Region: HisKA_3; pfam07730 395019009787 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 395019009788 ATP binding site [chemical binding]; other site 395019009789 Mg2+ binding site [ion binding]; other site 395019009790 G-X-G motif; other site 395019009791 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019009792 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 395019009793 active site 395019009794 phosphorylation site [posttranslational modification] 395019009795 intermolecular recognition site; other site 395019009796 dimerization interface [polypeptide binding]; other site 395019009797 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 395019009798 DNA binding residues [nucleotide binding] 395019009799 dimerization interface [polypeptide binding]; other site 395019009800 amino acid transporter; Region: 2A0306; TIGR00909 395019009801 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 395019009802 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 395019009803 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 395019009804 XdhC Rossmann domain; Region: XdhC_C; pfam13478 395019009805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 395019009806 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 395019009807 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 395019009808 Flagellar protein FliT; Region: FliT; cl05125 395019009809 Flagellar protein FliT; Region: FliT; cl05125 395019009810 Flagellar protein FliS; Region: FliS; cl00654 395019009811 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 395019009812 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 395019009813 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 395019009814 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 395019009815 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 395019009816 FliG C-terminal domain; Region: FliG_C; pfam01706 395019009817 flagellar assembly protein H; Validated; Region: fliH; PRK05687 395019009818 Flagellar assembly protein FliH; Region: FliH; pfam02108 395019009819 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 395019009820 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 395019009821 Walker A motif/ATP binding site; other site 395019009822 Walker B motif; other site 395019009823 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 395019009824 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 395019009825 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 395019009826 choline dehydrogenase; Validated; Region: PRK02106 395019009827 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395019009828 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 395019009829 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 395019009830 NAD(P) binding site [chemical binding]; other site 395019009831 catalytic residues [active] 395019009832 serine/threonine protein kinase; Provisional; Region: PRK11768 395019009833 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 395019009834 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395019009835 EamA-like transporter family; Region: EamA; pfam00892 395019009836 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 395019009837 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395019009838 active site 395019009839 catalytic tetrad [active] 395019009840 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 395019009841 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 395019009842 S-adenosylmethionine synthetase; Validated; Region: PRK05250 395019009843 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 395019009844 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 395019009845 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 395019009846 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 395019009847 putative acyl-acceptor binding pocket; other site 395019009848 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 395019009849 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 395019009850 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 395019009851 Protein of unknown function, DUF484; Region: DUF484; cl17449 395019009852 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 395019009853 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 395019009854 active site 395019009855 Int/Topo IB signature motif; other site 395019009856 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 395019009857 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 395019009858 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 395019009859 putative RNA binding site [nucleotide binding]; other site 395019009860 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 395019009861 S-adenosylmethionine binding site [chemical binding]; other site 395019009862 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395019009863 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 395019009864 P-loop, Walker A motif; other site 395019009865 Base recognition motif; other site 395019009866 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 395019009867 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 395019009868 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 395019009869 active site 395019009870 HslU subunit interaction site [polypeptide binding]; other site 395019009871 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 395019009872 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 395019009873 Walker A motif; other site 395019009874 ATP binding site [chemical binding]; other site 395019009875 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 395019009876 Walker B motif; other site 395019009877 arginine finger; other site 395019009878 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 395019009879 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 395019009880 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 395019009881 active site 395019009882 phosphorylation site [posttranslational modification] 395019009883 intermolecular recognition site; other site 395019009884 dimerization interface [polypeptide binding]; other site 395019009885 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395019009886 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019009887 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 395019009888 dimer interface [polypeptide binding]; other site 395019009889 phosphorylation site [posttranslational modification] 395019009890 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 395019009891 ATP binding site [chemical binding]; other site 395019009892 Mg2+ binding site [ion binding]; other site 395019009893 G-X-G motif; other site 395019009894 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 395019009895 feedback inhibition sensing region; other site 395019009896 homohexameric interface [polypeptide binding]; other site 395019009897 nucleotide binding site [chemical binding]; other site 395019009898 N-acetyl-L-glutamate binding site [chemical binding]; other site 395019009899 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 395019009900 division inhibitor protein; Provisional; Region: slmA; PRK09480 395019009901 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019009902 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 395019009903 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 395019009904 Autotransporter beta-domain; Region: Autotransporter; smart00869 395019009905 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 395019009906 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 395019009907 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 395019009908 muropeptide transporter; Reviewed; Region: ampG; PRK11902 395019009909 AmpG-like permease; Region: 2A0125; TIGR00901 395019009910 Peptidase family M48; Region: Peptidase_M48; cl12018 395019009911 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 395019009912 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019009913 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 395019009914 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 395019009915 putative NAD(P) binding site [chemical binding]; other site 395019009916 putative substrate binding site [chemical binding]; other site 395019009917 catalytic Zn binding site [ion binding]; other site 395019009918 structural Zn binding site [ion binding]; other site 395019009919 dimer interface [polypeptide binding]; other site 395019009920 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 395019009921 putative active site [active] 395019009922 putative catalytic site [active] 395019009923 putative DNA binding site [nucleotide binding]; other site 395019009924 putative phosphate binding site [ion binding]; other site 395019009925 metal binding site A [ion binding]; metal-binding site 395019009926 putative AP binding site [nucleotide binding]; other site 395019009927 putative metal binding site B [ion binding]; other site 395019009928 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 395019009929 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 395019009930 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 395019009931 GatB domain; Region: GatB_Yqey; smart00845 395019009932 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395019009933 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 395019009934 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 395019009935 rod shape-determining protein MreB; Provisional; Region: PRK13927 395019009936 MreB and similar proteins; Region: MreB_like; cd10225 395019009937 nucleotide binding site [chemical binding]; other site 395019009938 Mg binding site [ion binding]; other site 395019009939 putative protofilament interaction site [polypeptide binding]; other site 395019009940 RodZ interaction site [polypeptide binding]; other site 395019009941 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 395019009942 rod shape-determining protein MreC; Region: MreC; pfam04085 395019009943 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 395019009944 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 395019009945 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 395019009946 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 395019009947 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 395019009948 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395019009949 Sel1-like repeats; Region: SEL1; smart00671 395019009950 Sel1-like repeats; Region: SEL1; smart00671 395019009951 Sel1-like repeats; Region: SEL1; smart00671 395019009952 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 395019009953 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 395019009954 active site 395019009955 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 395019009956 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 395019009957 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 395019009958 Ligand Binding Site [chemical binding]; other site 395019009959 Response regulator receiver domain; Region: Response_reg; pfam00072 395019009960 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 395019009961 active site 395019009962 phosphorylation site [posttranslational modification] 395019009963 intermolecular recognition site; other site 395019009964 dimerization interface [polypeptide binding]; other site 395019009965 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 395019009966 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 395019009967 dimerization interface [polypeptide binding]; other site 395019009968 PAS domain; Region: PAS; smart00091 395019009969 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395019009970 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 395019009971 dimer interface [polypeptide binding]; other site 395019009972 phosphorylation site [posttranslational modification] 395019009973 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 395019009974 ATP binding site [chemical binding]; other site 395019009975 Mg2+ binding site [ion binding]; other site 395019009976 G-X-G motif; other site 395019009977 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 395019009978 16S rRNA methyltransferase B; Provisional; Region: PRK10901 395019009979 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 395019009980 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 395019009981 S-adenosylmethionine binding site [chemical binding]; other site 395019009982 M48 family peptidase; Provisional; Region: PRK03001 395019009983 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395019009984 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 395019009985 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 395019009986 putative active site [active] 395019009987 substrate binding site [chemical binding]; other site 395019009988 putative cosubstrate binding site; other site 395019009989 catalytic site [active] 395019009990 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 395019009991 substrate binding site [chemical binding]; other site 395019009992 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 395019009993 active site 395019009994 catalytic residues [active] 395019009995 metal binding site [ion binding]; metal-binding site 395019009996 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 395019009997 DNA protecting protein DprA; Region: dprA; TIGR00732 395019009998 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 395019009999 catalytic residues [active] 395019010000 DNA topoisomerase III; Validated; Region: PRK08173 395019010001 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 395019010002 active site 395019010003 putative interdomain interaction site [polypeptide binding]; other site 395019010004 putative metal-binding site [ion binding]; other site 395019010005 putative nucleotide binding site [chemical binding]; other site 395019010006 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 395019010007 domain I; other site 395019010008 DNA binding groove [nucleotide binding] 395019010009 phosphate binding site [ion binding]; other site 395019010010 domain II; other site 395019010011 domain III; other site 395019010012 nucleotide binding site [chemical binding]; other site 395019010013 catalytic site [active] 395019010014 domain IV; other site 395019010015 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 395019010016 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 395019010017 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019010018 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019010019 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 395019010020 putative effector binding pocket; other site 395019010021 dimerization interface [polypeptide binding]; other site 395019010022 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 395019010023 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 395019010024 dimerization interface [polypeptide binding]; other site 395019010025 NAD binding site [chemical binding]; other site 395019010026 ligand binding site [chemical binding]; other site 395019010027 catalytic site [active] 395019010028 Patatin-like phospholipase; Region: Patatin; pfam01734 395019010029 active site 395019010030 nucleophile elbow; other site 395019010031 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 395019010032 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 395019010033 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 395019010034 CoenzymeA binding site [chemical binding]; other site 395019010035 subunit interaction site [polypeptide binding]; other site 395019010036 PHB binding site; other site 395019010037 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 395019010038 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 395019010039 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 395019010040 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 395019010041 NAD(P) binding site [chemical binding]; other site 395019010042 catalytic residues [active] 395019010043 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 395019010044 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 395019010045 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 395019010046 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein; Region: phnS2; TIGR03261 395019010047 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 395019010048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019010049 Walker A/P-loop; other site 395019010050 ATP binding site [chemical binding]; other site 395019010051 Q-loop/lid; other site 395019010052 ABC transporter signature motif; other site 395019010053 Walker B; other site 395019010054 D-loop; other site 395019010055 H-loop/switch region; other site 395019010056 TOBE domain; Region: TOBE_2; pfam08402 395019010057 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 395019010058 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 395019010059 dimer interface [polypeptide binding]; other site 395019010060 conserved gate region; other site 395019010061 putative PBP binding loops; other site 395019010062 ABC-ATPase subunit interface; other site 395019010063 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 395019010064 dimer interface [polypeptide binding]; other site 395019010065 conserved gate region; other site 395019010066 putative PBP binding loops; other site 395019010067 ABC-ATPase subunit interface; other site 395019010068 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 395019010069 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019010070 catalytic residue [active] 395019010071 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395019010072 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019010073 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 395019010074 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019010075 DNA-binding site [nucleotide binding]; DNA binding site 395019010076 FCD domain; Region: FCD; pfam07729 395019010077 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 395019010078 L-lactate permease; Region: Lactate_perm; cl00701 395019010079 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019010080 glutamate--cysteine ligase; Provisional; Region: PRK02107 395019010081 AlkA N-terminal domain; Region: AlkA_N; pfam06029 395019010082 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 395019010083 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 395019010084 minor groove reading motif; other site 395019010085 helix-hairpin-helix signature motif; other site 395019010086 substrate binding pocket [chemical binding]; other site 395019010087 active site 395019010088 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 395019010089 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 395019010090 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019010091 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 395019010092 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 395019010093 DNA binding site [nucleotide binding] 395019010094 active site 395019010095 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 395019010096 dimer interface [polypeptide binding]; other site 395019010097 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019010098 metal binding site [ion binding]; metal-binding site 395019010099 YaeQ protein; Region: YaeQ; pfam07152 395019010100 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 395019010101 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395019010102 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 395019010103 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 395019010104 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 395019010105 trmE is a tRNA modification GTPase; Region: trmE; cd04164 395019010106 G1 box; other site 395019010107 GTP/Mg2+ binding site [chemical binding]; other site 395019010108 Switch I region; other site 395019010109 G2 box; other site 395019010110 Switch II region; other site 395019010111 G3 box; other site 395019010112 G4 box; other site 395019010113 G5 box; other site 395019010114 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 395019010115 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 395019010116 non-specific DNA binding site [nucleotide binding]; other site 395019010117 salt bridge; other site 395019010118 sequence-specific DNA binding site [nucleotide binding]; other site 395019010119 membrane protein insertase; Provisional; Region: PRK01318 395019010120 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 395019010121 hypothetical protein; Validated; Region: PRK00041 395019010122 Ribonuclease P; Region: Ribonuclease_P; cl00457 395019010123 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 395019010124 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 395019010125 active site 395019010126 catalytic residues [active] 395019010127 Int/Topo IB signature motif; other site 395019010128 DNA binding site [nucleotide binding] 395019010129 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 395019010130 Initiator Replication protein; Region: Rep_3; pfam01051 395019010131 ParB-like nuclease domain; Region: ParB; smart00470 395019010132 ParA-like protein; Provisional; Region: PHA02518 395019010133 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 395019010134 P-loop; other site 395019010135 Magnesium ion binding site [ion binding]; other site 395019010136 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 395019010137 ArsC family; Region: ArsC; pfam03960 395019010138 catalytic residues [active] 395019010139 Predicted flavoprotein [General function prediction only]; Region: COG0431 395019010140 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019010141 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019010142 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 395019010143 dimer interface [polypeptide binding]; other site 395019010144 phosphorylation site [posttranslational modification] 395019010145 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 395019010146 ATP binding site [chemical binding]; other site 395019010147 Mg2+ binding site [ion binding]; other site 395019010148 G-X-G motif; other site 395019010149 Response regulator receiver domain; Region: Response_reg; pfam00072 395019010150 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 395019010151 active site 395019010152 phosphorylation site [posttranslational modification] 395019010153 intermolecular recognition site; other site 395019010154 dimerization interface [polypeptide binding]; other site 395019010155 Response regulator receiver domain; Region: Response_reg; pfam00072 395019010156 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 395019010157 active site 395019010158 phosphorylation site [posttranslational modification] 395019010159 intermolecular recognition site; other site 395019010160 dimerization interface [polypeptide binding]; other site 395019010161 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 395019010162 PAS domain; Region: PAS_9; pfam13426 395019010163 putative active site [active] 395019010164 heme pocket [chemical binding]; other site 395019010165 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019010166 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019010167 metal binding site [ion binding]; metal-binding site 395019010168 active site 395019010169 I-site; other site 395019010170 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 395019010171 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019010172 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395019010173 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 395019010174 active site lid residues [active] 395019010175 substrate binding pocket [chemical binding]; other site 395019010176 catalytic residues [active] 395019010177 substrate-Mg2+ binding site; other site 395019010178 aspartate-rich region 1; other site 395019010179 aspartate-rich region 2; other site 395019010180 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395019010181 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 395019010182 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 395019010183 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 395019010184 Active site cavity [active] 395019010185 catalytic acid [active] 395019010186 hypothetical protein; Provisional; Region: PRK07077 395019010187 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 395019010188 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 395019010189 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 395019010190 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 395019010191 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 395019010192 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 395019010193 RHS Repeat; Region: RHS_repeat; pfam05593 395019010194 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 395019010195 RHS Repeat; Region: RHS_repeat; pfam05593 395019010196 RHS Repeat; Region: RHS_repeat; pfam05593 395019010197 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 395019010198 RHS Repeat; Region: RHS_repeat; pfam05593 395019010199 RHS Repeat; Region: RHS_repeat; pfam05593 395019010200 RHS Repeat; Region: RHS_repeat; pfam05593 395019010201 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 395019010202 RHS protein; Region: RHS; pfam03527 395019010203 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 395019010204 PAAR motif; Region: PAAR_motif; pfam05488 395019010205 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 395019010206 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 395019010207 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 395019010208 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 395019010209 VacJ like lipoprotein; Region: VacJ; cl01073 395019010210 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 395019010211 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 395019010212 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019010213 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 395019010214 active site 395019010215 phosphorylation site [posttranslational modification] 395019010216 intermolecular recognition site; other site 395019010217 dimerization interface [polypeptide binding]; other site 395019010218 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 395019010219 DNA binding residues [nucleotide binding] 395019010220 dimerization interface [polypeptide binding]; other site 395019010221 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 395019010222 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 395019010223 Histidine kinase; Region: HisKA_3; pfam07730 395019010224 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 395019010225 ATP binding site [chemical binding]; other site 395019010226 Mg2+ binding site [ion binding]; other site 395019010227 G-X-G motif; other site 395019010228 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019010229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019010230 metal binding site [ion binding]; metal-binding site 395019010231 active site 395019010232 I-site; other site 395019010233 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 395019010234 active site 395019010235 Domain of unknown function (DUF336); Region: DUF336; cl01249 395019010236 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 395019010237 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 395019010238 FMN binding site [chemical binding]; other site 395019010239 substrate binding site [chemical binding]; other site 395019010240 putative catalytic residue [active] 395019010241 CheB methylesterase; Region: CheB_methylest; pfam01339 395019010242 CheB methylesterase; Region: CheB_methylest; pfam01339 395019010243 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 395019010244 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 395019010245 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 395019010246 S-adenosylmethionine binding site [chemical binding]; other site 395019010247 PAS domain; Region: PAS_9; pfam13426 395019010248 PAS domain; Region: PAS_10; pfam13596 395019010249 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395019010250 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 395019010251 putative active site [active] 395019010252 heme pocket [chemical binding]; other site 395019010253 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 395019010254 dimer interface [polypeptide binding]; other site 395019010255 phosphorylation site [posttranslational modification] 395019010256 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 395019010257 ATP binding site [chemical binding]; other site 395019010258 Mg2+ binding site [ion binding]; other site 395019010259 G-X-G motif; other site 395019010260 Response regulator receiver domain; Region: Response_reg; pfam00072 395019010261 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 395019010262 active site 395019010263 phosphorylation site [posttranslational modification] 395019010264 intermolecular recognition site; other site 395019010265 dimerization interface [polypeptide binding]; other site 395019010266 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 395019010267 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 395019010268 dimer interface [polypeptide binding]; other site 395019010269 conserved gate region; other site 395019010270 putative PBP binding loops; other site 395019010271 ABC-ATPase subunit interface; other site 395019010272 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 395019010273 dimer interface [polypeptide binding]; other site 395019010274 conserved gate region; other site 395019010275 putative PBP binding loops; other site 395019010276 ABC-ATPase subunit interface; other site 395019010277 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 395019010278 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 395019010279 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 395019010280 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 395019010281 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 395019010282 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 395019010283 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 395019010284 Walker A/P-loop; other site 395019010285 ATP binding site [chemical binding]; other site 395019010286 Q-loop/lid; other site 395019010287 ABC transporter signature motif; other site 395019010288 Walker B; other site 395019010289 D-loop; other site 395019010290 H-loop/switch region; other site 395019010291 TOBE domain; Region: TOBE_2; pfam08402 395019010292 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395019010293 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395019010294 DNA binding site [nucleotide binding] 395019010295 domain linker motif; other site 395019010296 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395019010297 dimerization interface [polypeptide binding]; other site 395019010298 ligand binding site [chemical binding]; other site 395019010299 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 395019010300 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 395019010301 N-terminal plug; other site 395019010302 ligand-binding site [chemical binding]; other site 395019010303 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 395019010304 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019010305 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 395019010306 dimerization interface [polypeptide binding]; other site 395019010307 dihydroxy-acid dehydratase; Validated; Region: PRK06131 395019010308 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 395019010309 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 395019010310 putative substrate translocation pore; other site 395019010311 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 395019010312 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395019010313 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395019010314 inhibitor site; inhibition site 395019010315 active site 395019010316 dimer interface [polypeptide binding]; other site 395019010317 catalytic residue [active] 395019010318 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395019010319 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 395019010320 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 395019010321 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 395019010322 ligand binding site [chemical binding]; other site 395019010323 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 395019010324 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 395019010325 Walker A/P-loop; other site 395019010326 ATP binding site [chemical binding]; other site 395019010327 Q-loop/lid; other site 395019010328 ABC transporter signature motif; other site 395019010329 Walker B; other site 395019010330 D-loop; other site 395019010331 H-loop/switch region; other site 395019010332 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 395019010333 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019010334 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019010335 TM-ABC transporter signature motif; other site 395019010336 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 395019010337 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 395019010338 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 395019010339 substrate binding site [chemical binding]; other site 395019010340 oxyanion hole (OAH) forming residues; other site 395019010341 trimer interface [polypeptide binding]; other site 395019010342 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 395019010343 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 395019010344 NAD(P) binding site [chemical binding]; other site 395019010345 catalytic residues [active] 395019010346 feruloyl-CoA synthase; Reviewed; Region: PRK08180 395019010347 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 395019010348 acyl-activating enzyme (AAE) consensus motif; other site 395019010349 putative AMP binding site [chemical binding]; other site 395019010350 putative active site [active] 395019010351 putative CoA binding site [chemical binding]; other site 395019010352 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395019010353 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 395019010354 FMN-binding pocket [chemical binding]; other site 395019010355 flavin binding motif; other site 395019010356 phosphate binding motif [ion binding]; other site 395019010357 beta-alpha-beta structure motif; other site 395019010358 NAD binding pocket [chemical binding]; other site 395019010359 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 395019010360 catalytic loop [active] 395019010361 iron binding site [ion binding]; other site 395019010362 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395019010363 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 395019010364 iron-sulfur cluster [ion binding]; other site 395019010365 [2Fe-2S] cluster binding site [ion binding]; other site 395019010366 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 395019010367 alpha subunit interface [polypeptide binding]; other site 395019010368 active site 395019010369 substrate binding site [chemical binding]; other site 395019010370 Fe binding site [ion binding]; other site 395019010371 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395019010372 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019010373 DNA-binding site [nucleotide binding]; DNA binding site 395019010374 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 395019010375 MarR family; Region: MarR_2; cl17246 395019010376 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019010377 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 395019010378 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 395019010379 putative substrate translocation pore; other site 395019010380 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019010381 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019010382 trimer interface [polypeptide binding]; other site 395019010383 eyelet of channel; other site 395019010384 Tannase and feruloyl esterase; Region: Tannase; pfam07519 395019010385 aminotransferase; Validated; Region: PRK07046 395019010386 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 395019010387 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019010388 catalytic residue [active] 395019010389 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 395019010390 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 395019010391 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 395019010392 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019010393 Coenzyme A binding pocket [chemical binding]; other site 395019010394 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 395019010395 cytosine deaminase; Provisional; Region: PRK05985 395019010396 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 395019010397 active site 395019010398 cytosine deaminase; Provisional; Region: PRK05985 395019010399 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 395019010400 active site 395019010401 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019010402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019010403 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 395019010404 dimerization interface [polypeptide binding]; other site 395019010405 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 395019010406 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 395019010407 substrate binding pocket [chemical binding]; other site 395019010408 membrane-bound complex binding site; other site 395019010409 hinge residues; other site 395019010410 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 395019010411 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 395019010412 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019010413 DNA-binding site [nucleotide binding]; DNA binding site 395019010414 UTRA domain; Region: UTRA; pfam07702 395019010415 short chain dehydrogenase; Provisional; Region: PRK07023 395019010416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019010417 NAD(P) binding site [chemical binding]; other site 395019010418 active site 395019010419 hypothetical protein; Provisional; Region: PRK11239 395019010420 Protein of unknown function, DUF480; Region: DUF480; pfam04337 395019010421 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 395019010422 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 395019010423 PRC-barrel domain; Region: PRC; pfam05239 395019010424 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 395019010425 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 395019010426 octamer interface [polypeptide binding]; other site 395019010427 active site 395019010428 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 395019010429 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 395019010430 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 395019010431 dimer interface [polypeptide binding]; other site 395019010432 active site 395019010433 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 395019010434 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 395019010435 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 395019010436 putative alpha subunit interface [polypeptide binding]; other site 395019010437 putative active site [active] 395019010438 putative substrate binding site [chemical binding]; other site 395019010439 Fe binding site [ion binding]; other site 395019010440 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 395019010441 inter-subunit interface; other site 395019010442 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 395019010443 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 395019010444 catalytic loop [active] 395019010445 iron binding site [ion binding]; other site 395019010446 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 395019010447 FAD binding pocket [chemical binding]; other site 395019010448 FAD binding motif [chemical binding]; other site 395019010449 phosphate binding motif [ion binding]; other site 395019010450 beta-alpha-beta structure motif; other site 395019010451 NAD binding pocket [chemical binding]; other site 395019010452 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 395019010453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019010454 NAD(P) binding site [chemical binding]; other site 395019010455 active site 395019010456 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 395019010457 homotrimer interaction site [polypeptide binding]; other site 395019010458 putative active site [active] 395019010459 benzoate transport; Region: 2A0115; TIGR00895 395019010460 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 395019010461 putative substrate translocation pore; other site 395019010462 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395019010463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019010464 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 395019010465 dimerizarion interface [polypeptide binding]; other site 395019010466 CrgA pocket; other site 395019010467 substrate binding pocket [chemical binding]; other site 395019010468 carbon starvation protein A; Provisional; Region: PRK15015 395019010469 Carbon starvation protein CstA; Region: CstA; pfam02554 395019010470 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 395019010471 Protein of unknown function (DUF466); Region: DUF466; pfam04328 395019010472 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 395019010473 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 395019010474 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 395019010475 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 395019010476 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 395019010477 FeS/SAM binding site; other site 395019010478 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 395019010479 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 395019010480 LytB protein; Region: LYTB; pfam02401 395019010481 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 395019010482 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 395019010483 active site 395019010484 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 395019010485 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 395019010486 putative NADP binding site [chemical binding]; other site 395019010487 putative substrate binding site [chemical binding]; other site 395019010488 active site 395019010489 acylphosphatase; Provisional; Region: PRK14424 395019010490 Predicted permeases [General function prediction only]; Region: RarD; COG2962 395019010491 OpgC protein; Region: OpgC_C; pfam10129 395019010492 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 395019010493 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 395019010494 putative substrate translocation pore; other site 395019010495 POT family; Region: PTR2; cl17359 395019010496 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 395019010497 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 395019010498 non-specific DNA binding site [nucleotide binding]; other site 395019010499 salt bridge; other site 395019010500 sequence-specific DNA binding site [nucleotide binding]; other site 395019010501 Cupin domain; Region: Cupin_2; pfam07883 395019010502 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 395019010503 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 395019010504 peptide binding site [polypeptide binding]; other site 395019010505 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 395019010506 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 395019010507 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 395019010508 ABC-ATPase subunit interface; other site 395019010509 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395019010510 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 395019010511 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 395019010512 dimer interface [polypeptide binding]; other site 395019010513 conserved gate region; other site 395019010514 putative PBP binding loops; other site 395019010515 ABC-ATPase subunit interface; other site 395019010516 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 395019010517 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395019010518 Walker A/P-loop; other site 395019010519 ATP binding site [chemical binding]; other site 395019010520 Q-loop/lid; other site 395019010521 ABC transporter signature motif; other site 395019010522 Walker B; other site 395019010523 D-loop; other site 395019010524 H-loop/switch region; other site 395019010525 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 395019010526 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 395019010527 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395019010528 Walker A/P-loop; other site 395019010529 ATP binding site [chemical binding]; other site 395019010530 Q-loop/lid; other site 395019010531 ABC transporter signature motif; other site 395019010532 Walker B; other site 395019010533 D-loop; other site 395019010534 H-loop/switch region; other site 395019010535 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395019010536 outer membrane porin, OprD family; Region: OprD; pfam03573 395019010537 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 395019010538 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 395019010539 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 395019010540 active site residue [active] 395019010541 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 395019010542 Phosphoesterase family; Region: Phosphoesterase; pfam04185 395019010543 Domain of unknown function (DUF756); Region: DUF756; pfam05506 395019010544 Domain of unknown function (DUF756); Region: DUF756; pfam05506 395019010545 putative acetyltransferase YhhY; Provisional; Region: PRK10140 395019010546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019010547 Coenzyme A binding pocket [chemical binding]; other site 395019010548 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 395019010549 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019010550 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019010551 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 395019010552 PAS fold; Region: PAS_4; pfam08448 395019010553 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395019010554 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 395019010555 Walker B motif; other site 395019010556 arginine finger; other site 395019010557 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395019010558 H-NS histone family; Region: Histone_HNS; pfam00816 395019010559 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 395019010560 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 395019010561 CoA binding domain; Region: CoA_binding_2; pfam13380 395019010562 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 395019010563 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 395019010564 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395019010565 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395019010566 putative outer membrane lipoprotein; Provisional; Region: PRK09967 395019010567 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019010568 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 395019010569 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019010570 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 395019010571 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395019010572 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 395019010573 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019010574 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 395019010575 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 395019010576 CGNR zinc finger; Region: zf-CGNR; pfam11706 395019010577 Propionate catabolism activator; Region: PrpR_N; pfam06506 395019010578 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 395019010579 PAS domain; Region: PAS; smart00091 395019010580 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 395019010581 Walker A motif; other site 395019010582 ATP binding site [chemical binding]; other site 395019010583 Walker B motif; other site 395019010584 arginine finger; other site 395019010585 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 395019010586 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 395019010587 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 395019010588 tetramer interface [polypeptide binding]; other site 395019010589 active site 395019010590 Mg2+/Mn2+ binding site [ion binding]; other site 395019010591 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 395019010592 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 395019010593 dimer interface [polypeptide binding]; other site 395019010594 active site 395019010595 citrylCoA binding site [chemical binding]; other site 395019010596 oxalacetate/citrate binding site [chemical binding]; other site 395019010597 coenzyme A binding site [chemical binding]; other site 395019010598 catalytic triad [active] 395019010599 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 395019010600 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 395019010601 substrate binding site [chemical binding]; other site 395019010602 ligand binding site [chemical binding]; other site 395019010603 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 395019010604 substrate binding site [chemical binding]; other site 395019010605 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 395019010606 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395019010607 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395019010608 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 395019010609 CoenzymeA binding site [chemical binding]; other site 395019010610 subunit interaction site [polypeptide binding]; other site 395019010611 PHB binding site; other site 395019010612 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 395019010613 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 395019010614 dimer interface [polypeptide binding]; other site 395019010615 ligand binding site [chemical binding]; other site 395019010616 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019010617 dimer interface [polypeptide binding]; other site 395019010618 putative CheW interface [polypeptide binding]; other site 395019010619 dimerization interface [polypeptide binding]; other site 395019010620 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 395019010621 putative active cleft [active] 395019010622 MgtC family; Region: MgtC; pfam02308 395019010623 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395019010624 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019010625 Coenzyme A binding pocket [chemical binding]; other site 395019010626 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 395019010627 metal-binding site [ion binding] 395019010628 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 395019010629 metal-binding site [ion binding] 395019010630 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 395019010631 metal-binding site [ion binding] 395019010632 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 395019010633 metal-binding site [ion binding] 395019010634 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 395019010635 metal-binding site [ion binding] 395019010636 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 395019010637 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 395019010638 metal-binding site [ion binding] 395019010639 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395019010640 Soluble P-type ATPase [General function prediction only]; Region: COG4087 395019010641 Uncharacterized conserved protein [Function unknown]; Region: COG5361 395019010642 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 395019010643 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 395019010644 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 395019010645 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 395019010646 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 395019010647 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 395019010648 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 395019010649 Sulfatase; Region: Sulfatase; cl17466 395019010650 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 395019010651 Sulfatase; Region: Sulfatase; cl17466 395019010652 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 395019010653 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 395019010654 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 395019010655 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 395019010656 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 395019010657 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 395019010658 tetramer interface [polypeptide binding]; other site 395019010659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019010660 catalytic residue [active] 395019010661 Protein of unknown function (DUF1059); Region: DUF1059; cl02284 395019010662 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 395019010663 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019010664 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 395019010665 putative dimerization interface [polypeptide binding]; other site 395019010666 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 395019010667 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 395019010668 active site residue [active] 395019010669 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395019010670 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 395019010671 C-terminal domain interface [polypeptide binding]; other site 395019010672 GSH binding site (G-site) [chemical binding]; other site 395019010673 dimer interface [polypeptide binding]; other site 395019010674 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 395019010675 N-terminal domain interface [polypeptide binding]; other site 395019010676 dimer interface [polypeptide binding]; other site 395019010677 substrate binding pocket (H-site) [chemical binding]; other site 395019010678 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 395019010679 active site 395019010680 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019010681 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019010682 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019010683 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 395019010684 dimerization interface [polypeptide binding]; other site 395019010685 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 395019010686 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 395019010687 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 395019010688 putative catalytic residue [active] 395019010689 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395019010690 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 395019010691 putative hydrophobic ligand binding site [chemical binding]; other site 395019010692 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395019010693 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 395019010694 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 395019010695 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 395019010696 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 395019010697 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395019010698 GST_N family, unknown subfamily 2; 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_2; cd03047 395019010699 putative C-terminal domain interface [polypeptide binding]; other site 395019010700 putative GSH binding site (G-site) [chemical binding]; other site 395019010701 putative dimer interface [polypeptide binding]; other site 395019010702 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 395019010703 putative N-terminal domain interface [polypeptide binding]; other site 395019010704 putative dimer interface [polypeptide binding]; other site 395019010705 putative substrate binding pocket (H-site) [chemical binding]; other site 395019010706 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395019010707 Beta-lactamase; Region: Beta-lactamase; pfam00144 395019010708 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 395019010709 HIT family signature motif; other site 395019010710 catalytic residue [active] 395019010711 hypothetical protein; Provisional; Region: PRK11171 395019010712 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 395019010713 Cupin domain; Region: Cupin_2; pfam07883 395019010714 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 395019010715 Transglycosylase; Region: Transgly; pfam00912 395019010716 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 395019010717 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 395019010718 Predicted membrane protein [Function unknown]; Region: COG2860 395019010719 UPF0126 domain; Region: UPF0126; pfam03458 395019010720 UPF0126 domain; Region: UPF0126; pfam03458 395019010721 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13547 395019010722 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 395019010723 Walker A/P-loop; other site 395019010724 ATP binding site [chemical binding]; other site 395019010725 Q-loop/lid; other site 395019010726 ABC transporter signature motif; other site 395019010727 Walker B; other site 395019010728 D-loop; other site 395019010729 H-loop/switch region; other site 395019010730 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 395019010731 FecCD transport family; Region: FecCD; pfam01032 395019010732 putative PBP binding regions; other site 395019010733 ABC-ATPase subunit interface; other site 395019010734 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 395019010735 intersubunit interface [polypeptide binding]; other site 395019010736 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 395019010737 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 395019010738 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 395019010739 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 395019010740 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 395019010741 N-terminal plug; other site 395019010742 ligand-binding site [chemical binding]; other site 395019010743 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 395019010744 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019010745 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019010746 trimer interface [polypeptide binding]; other site 395019010747 eyelet of channel; other site 395019010748 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 395019010749 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 395019010750 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 395019010751 Predicted deacylase [General function prediction only]; Region: COG3608 395019010752 active site 395019010753 Zn binding site [ion binding]; other site 395019010754 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019010755 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019010756 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019010757 HTH-like domain; Region: HTH_21; pfam13276 395019010758 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395019010759 Integrase core domain; Region: rve; pfam00665 395019010760 Integrase core domain; Region: rve_2; pfam13333 395019010761 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 395019010762 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395019010763 substrate binding pocket [chemical binding]; other site 395019010764 membrane-bound complex binding site; other site 395019010765 hinge residues; other site 395019010766 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 395019010767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019010768 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 395019010769 dimerization interface [polypeptide binding]; other site 395019010770 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 395019010771 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 395019010772 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 395019010773 FMN binding site [chemical binding]; other site 395019010774 active site 395019010775 substrate binding site [chemical binding]; other site 395019010776 catalytic residue [active] 395019010777 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 395019010778 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395019010779 active site 395019010780 catalytic tetrad [active] 395019010781 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019010782 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019010783 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 395019010784 dimerization interface [polypeptide binding]; other site 395019010785 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 395019010786 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 395019010787 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 395019010788 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 395019010789 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 395019010790 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 395019010791 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 395019010792 NADP binding site [chemical binding]; other site 395019010793 dimer interface [polypeptide binding]; other site 395019010794 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019010795 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019010796 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395019010797 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395019010798 metal binding site [ion binding]; metal-binding site 395019010799 putative dimer interface [polypeptide binding]; other site 395019010800 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 395019010801 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019010802 putative substrate translocation pore; other site 395019010803 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 395019010804 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395019010805 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019010806 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 395019010807 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 395019010808 dimer interface [polypeptide binding]; other site 395019010809 active site 395019010810 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 395019010811 PAS domain; Region: PAS_9; pfam13426 395019010812 putative active site [active] 395019010813 heme pocket [chemical binding]; other site 395019010814 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 395019010815 dimerization interface [polypeptide binding]; other site 395019010816 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395019010817 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019010818 dimer interface [polypeptide binding]; other site 395019010819 putative CheW interface [polypeptide binding]; other site 395019010820 succinic semialdehyde dehydrogenase; Region: PLN02278 395019010821 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395019010822 tetramerization interface [polypeptide binding]; other site 395019010823 NAD(P) binding site [chemical binding]; other site 395019010824 catalytic residues [active] 395019010825 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 395019010826 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 395019010827 inhibitor-cofactor binding pocket; inhibition site 395019010828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019010829 catalytic residue [active] 395019010830 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019010831 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019010832 DNA-binding site [nucleotide binding]; DNA binding site 395019010833 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 395019010834 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019010835 homodimer interface [polypeptide binding]; other site 395019010836 catalytic residue [active] 395019010837 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 395019010838 EamA-like transporter family; Region: EamA; cl17759 395019010839 selenophosphate synthetase; Provisional; Region: PRK00943 395019010840 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 395019010841 dimerization interface [polypeptide binding]; other site 395019010842 putative ATP binding site [chemical binding]; other site 395019010843 LysE type translocator; Region: LysE; cl00565 395019010844 Purine nucleoside permease (NUP); Region: NUP; pfam06516 395019010845 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019010846 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019010847 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019010848 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 395019010849 putative effector binding pocket; other site 395019010850 putative dimerization interface [polypeptide binding]; other site 395019010851 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 395019010852 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395019010853 substrate binding pocket [chemical binding]; other site 395019010854 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395019010855 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395019010856 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019010857 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019010858 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 395019010859 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019010860 toxin ChpB; Provisional; Region: PRK09812 395019010861 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 395019010862 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 395019010863 Uncharacterized conserved protein [Function unknown]; Region: COG5476 395019010864 MlrC C-terminus; Region: MlrC_C; pfam07171 395019010865 D-galactonate transporter; Region: 2A0114; TIGR00893 395019010866 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 395019010867 putative substrate translocation pore; other site 395019010868 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019010869 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019010870 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 395019010871 dimerization interface [polypeptide binding]; other site 395019010872 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019010873 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019010874 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 395019010875 dimerization interface [polypeptide binding]; other site 395019010876 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 395019010877 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 395019010878 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395019010879 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 395019010880 catalytic site [active] 395019010881 PAAR motif; Region: PAAR_motif; pfam05488 395019010882 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 395019010883 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 395019010884 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395019010885 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 395019010886 active site 395019010887 phosphorylation site [posttranslational modification] 395019010888 intermolecular recognition site; other site 395019010889 dimerization interface [polypeptide binding]; other site 395019010890 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 395019010891 Walker A motif; other site 395019010892 ATP binding site [chemical binding]; other site 395019010893 Walker B motif; other site 395019010894 arginine finger; other site 395019010895 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395019010896 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 395019010897 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 395019010898 dimer interface [polypeptide binding]; other site 395019010899 phosphorylation site [posttranslational modification] 395019010900 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 395019010901 ATP binding site [chemical binding]; other site 395019010902 Mg2+ binding site [ion binding]; other site 395019010903 G-X-G motif; other site 395019010904 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 395019010905 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 395019010906 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 395019010907 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395019010908 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395019010909 active site 395019010910 non-prolyl cis peptide bond; other site 395019010911 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 395019010912 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 395019010913 Walker A/P-loop; other site 395019010914 ATP binding site [chemical binding]; other site 395019010915 Q-loop/lid; other site 395019010916 ABC transporter signature motif; other site 395019010917 Walker B; other site 395019010918 D-loop; other site 395019010919 H-loop/switch region; other site 395019010920 NIL domain; Region: NIL; pfam09383 395019010921 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 395019010922 conserved gate region; other site 395019010923 dimer interface [polypeptide binding]; other site 395019010924 ABC-ATPase subunit interface; other site 395019010925 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 395019010926 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 395019010927 Flavin binding site [chemical binding]; other site 395019010928 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 395019010929 non-specific DNA binding site [nucleotide binding]; other site 395019010930 salt bridge; other site 395019010931 sequence-specific DNA binding site [nucleotide binding]; other site 395019010932 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 395019010933 D-galactonate transporter; Region: 2A0114; TIGR00893 395019010934 putative substrate translocation pore; other site 395019010935 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 395019010936 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 395019010937 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 395019010938 dimer interface [polypeptide binding]; other site 395019010939 NADP binding site [chemical binding]; other site 395019010940 catalytic residues [active] 395019010941 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019010942 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019010943 DNA-binding site [nucleotide binding]; DNA binding site 395019010944 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 395019010945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019010946 homodimer interface [polypeptide binding]; other site 395019010947 catalytic residue [active] 395019010948 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395019010949 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395019010950 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019010951 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019010952 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 395019010953 putative effector binding pocket; other site 395019010954 dimerization interface [polypeptide binding]; other site 395019010955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019010956 NmrA-like family; Region: NmrA; pfam05368 395019010957 NAD(P) binding site [chemical binding]; other site 395019010958 active site 395019010959 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; cl00470 395019010960 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395019010961 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 395019010962 putative active site [active] 395019010963 catalytic residue [active] 395019010964 galactarate dehydratase; Region: galactar-dH20; TIGR03248 395019010965 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 395019010966 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 395019010967 SnoaL-like domain; Region: SnoaL_2; pfam12680 395019010968 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 395019010969 Predicted membrane protein [Function unknown]; Region: COG2259 395019010970 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019010971 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 395019010972 putative substrate translocation pore; other site 395019010973 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019010974 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395019010975 dimerization interface [polypeptide binding]; other site 395019010976 ligand binding site [chemical binding]; other site 395019010977 PAS fold; Region: PAS_4; pfam08448 395019010978 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 395019010979 putative active site [active] 395019010980 heme pocket [chemical binding]; other site 395019010981 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019010982 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019010983 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019010984 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395019010985 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 395019010986 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 395019010987 dimer interface [polypeptide binding]; other site 395019010988 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 395019010989 active site 395019010990 Fe binding site [ion binding]; other site 395019010991 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 395019010992 Dehydroquinase class II; Region: DHquinase_II; pfam01220 395019010993 active site 395019010994 trimer interface [polypeptide binding]; other site 395019010995 dimer interface [polypeptide binding]; other site 395019010996 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 395019010997 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 395019010998 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 395019010999 shikimate binding site; other site 395019011000 NAD(P) binding site [chemical binding]; other site 395019011001 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 395019011002 D-galactonate transporter; Region: 2A0114; TIGR00893 395019011003 putative substrate translocation pore; other site 395019011004 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 395019011005 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019011006 catalytic residue [active] 395019011007 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 395019011008 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395019011009 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 395019011010 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019011011 Walker A/P-loop; other site 395019011012 ATP binding site [chemical binding]; other site 395019011013 Q-loop/lid; other site 395019011014 ABC transporter signature motif; other site 395019011015 Walker B; other site 395019011016 D-loop; other site 395019011017 H-loop/switch region; other site 395019011018 TOBE domain; Region: TOBE_2; pfam08402 395019011019 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 395019011020 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 395019011021 dimer interface [polypeptide binding]; other site 395019011022 conserved gate region; other site 395019011023 putative PBP binding loops; other site 395019011024 ABC-ATPase subunit interface; other site 395019011025 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 395019011026 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 395019011027 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 395019011028 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 395019011029 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 395019011030 NAD(P) binding site [chemical binding]; other site 395019011031 catalytic residues [active] 395019011032 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 395019011033 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 395019011034 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019011035 putative substrate translocation pore; other site 395019011036 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 395019011037 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 395019011038 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 395019011039 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 395019011040 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019011041 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 395019011042 putative dimerization interface [polypeptide binding]; other site 395019011043 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 395019011044 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 395019011045 THF binding site; other site 395019011046 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 395019011047 substrate binding site [chemical binding]; other site 395019011048 THF binding site; other site 395019011049 zinc-binding site [ion binding]; other site 395019011050 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019011051 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 395019011052 putative substrate translocation pore; other site 395019011053 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 395019011054 agmatinase; Region: agmatinase; TIGR01230 395019011055 oligomer interface [polypeptide binding]; other site 395019011056 putative active site [active] 395019011057 Mn binding site [ion binding]; other site 395019011058 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019011059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019011060 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 395019011061 dimerization interface [polypeptide binding]; other site 395019011062 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019011063 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 395019011064 putative DNA binding site [nucleotide binding]; other site 395019011065 putative Zn2+ binding site [ion binding]; other site 395019011066 AsnC family; Region: AsnC_trans_reg; pfam01037 395019011067 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395019011068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395019011069 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019011070 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019011071 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 395019011072 peptidase domain interface [polypeptide binding]; other site 395019011073 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 395019011074 active site 395019011075 catalytic triad [active] 395019011076 calcium binding site [ion binding]; other site 395019011077 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 395019011078 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 395019011079 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 395019011080 homodimer interface [polypeptide binding]; other site 395019011081 NAD binding pocket [chemical binding]; other site 395019011082 ATP binding pocket [chemical binding]; other site 395019011083 Mg binding site [ion binding]; other site 395019011084 active-site loop [active] 395019011085 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395019011086 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 395019011087 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 395019011088 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 395019011089 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 395019011090 putative active site [active] 395019011091 catalytic site [active] 395019011092 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 395019011093 putative active site [active] 395019011094 catalytic site [active] 395019011095 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019011096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019011097 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395019011098 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019011099 lysine transporter; Provisional; Region: PRK10836 395019011100 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 395019011101 aldehyde dehydrogenase family 7 member; Region: PLN02315 395019011102 tetrameric interface [polypeptide binding]; other site 395019011103 NAD binding site [chemical binding]; other site 395019011104 catalytic residues [active] 395019011105 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 395019011106 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 395019011107 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395019011108 benzoate transport; Region: 2A0115; TIGR00895 395019011109 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 395019011110 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 395019011111 Transglycosylase; Region: Transgly; pfam00912 395019011112 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 395019011113 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 395019011114 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019011115 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019011116 DNA-binding site [nucleotide binding]; DNA binding site 395019011117 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 395019011118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019011119 homodimer interface [polypeptide binding]; other site 395019011120 catalytic residue [active] 395019011121 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 395019011122 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 395019011123 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019011124 catalytic residues [active] 395019011125 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395019011126 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 395019011127 active site 395019011128 phosphorylation site [posttranslational modification] 395019011129 intermolecular recognition site; other site 395019011130 dimerization interface [polypeptide binding]; other site 395019011131 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 395019011132 DNA binding site [nucleotide binding] 395019011133 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019011134 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 395019011135 ATP binding site [chemical binding]; other site 395019011136 Mg2+ binding site [ion binding]; other site 395019011137 G-X-G motif; other site 395019011138 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 395019011139 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395019011140 active site 395019011141 metal binding site [ion binding]; metal-binding site 395019011142 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 395019011143 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019011144 Coenzyme A binding pocket [chemical binding]; other site 395019011145 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019011146 trimer interface [polypeptide binding]; other site 395019011147 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019011148 eyelet of channel; other site 395019011149 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 395019011150 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019011151 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019011152 isovaleryl-CoA dehydrogenase; Region: PLN02519 395019011153 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 395019011154 substrate binding site [chemical binding]; other site 395019011155 FAD binding site [chemical binding]; other site 395019011156 catalytic base [active] 395019011157 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 395019011158 enoyl-CoA hydratase; Provisional; Region: PRK05995 395019011159 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 395019011160 substrate binding site [chemical binding]; other site 395019011161 oxyanion hole (OAH) forming residues; other site 395019011162 trimer interface [polypeptide binding]; other site 395019011163 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 395019011164 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 395019011165 ATP-grasp domain; Region: ATP-grasp_4; cl17255 395019011166 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 395019011167 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 395019011168 carboxyltransferase (CT) interaction site; other site 395019011169 biotinylation site [posttranslational modification]; other site 395019011170 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 395019011171 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 395019011172 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 395019011173 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 395019011174 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 395019011175 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395019011176 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019011177 ligand binding site [chemical binding]; other site 395019011178 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 395019011179 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 395019011180 trimer interface [polypeptide binding]; other site 395019011181 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 395019011182 trimer interface [polypeptide binding]; other site 395019011183 YadA-like C-terminal region; Region: YadA; pfam03895 395019011184 Transposase domain (DUF772); Region: DUF772; pfam05598 395019011185 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395019011186 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019011187 Predicted flavoprotein [General function prediction only]; Region: COG0431 395019011188 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019011189 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 395019011190 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 395019011191 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 395019011192 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 395019011193 Walker A/P-loop; other site 395019011194 ATP binding site [chemical binding]; other site 395019011195 Q-loop/lid; other site 395019011196 ABC transporter signature motif; other site 395019011197 Walker B; other site 395019011198 D-loop; other site 395019011199 H-loop/switch region; other site 395019011200 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 395019011201 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 395019011202 dimer interface [polypeptide binding]; other site 395019011203 conserved gate region; other site 395019011204 putative PBP binding loops; other site 395019011205 ABC-ATPase subunit interface; other site 395019011206 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395019011207 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395019011208 conserved cys residue [active] 395019011209 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 395019011210 metal binding site [ion binding]; metal-binding site 395019011211 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 395019011212 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 395019011213 VPS10 domain; Region: VPS10; smart00602 395019011214 SnoaL-like domain; Region: SnoaL_2; pfam12680 395019011215 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 395019011216 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019011217 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395019011218 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 395019011219 putative NAD(P) binding site [chemical binding]; other site 395019011220 active site 395019011221 putative substrate binding site [chemical binding]; other site 395019011222 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 395019011223 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 395019011224 D-galactonate transporter; Region: 2A0114; TIGR00893 395019011225 putative substrate translocation pore; other site 395019011226 putative aldolase; Validated; Region: PRK08130 395019011227 intersubunit interface [polypeptide binding]; other site 395019011228 active site 395019011229 Zn2+ binding site [ion binding]; other site 395019011230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 395019011231 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395019011232 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395019011233 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395019011234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019011235 DNA-binding site [nucleotide binding]; DNA binding site 395019011236 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 395019011237 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395019011238 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395019011239 conserved cys residue [active] 395019011240 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019011241 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 395019011242 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 395019011243 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 395019011244 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 395019011245 hydroxyglutarate oxidase; Provisional; Region: PRK11728 395019011246 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 395019011247 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 395019011248 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 395019011249 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019011250 Conjugative relaxosome accessory transposon protein; Region: TraH; cl05580 395019011251 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 395019011252 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 395019011253 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 395019011254 active site 395019011255 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395019011256 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 395019011257 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395019011258 catalytic residue [active] 395019011259 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 395019011260 dimer interface [polypeptide binding]; other site 395019011261 conserved gate region; other site 395019011262 putative PBP binding loops; other site 395019011263 ABC-ATPase subunit interface; other site 395019011264 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 395019011265 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 395019011266 Walker A/P-loop; other site 395019011267 ATP binding site [chemical binding]; other site 395019011268 Q-loop/lid; other site 395019011269 ABC transporter signature motif; other site 395019011270 Walker B; other site 395019011271 D-loop; other site 395019011272 H-loop/switch region; other site 395019011273 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 395019011274 ABC-ATPase subunit interface; other site 395019011275 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 395019011276 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 395019011277 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395019011278 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 395019011279 putative ligand binding site [chemical binding]; other site 395019011280 NAD binding site [chemical binding]; other site 395019011281 catalytic site [active] 395019011282 OsmC-like protein; Region: OsmC; cl00767 395019011283 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 395019011284 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 395019011285 acyl-activating enzyme (AAE) consensus motif; other site 395019011286 AMP binding site [chemical binding]; other site 395019011287 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 395019011288 thioester reductase domain; Region: Thioester-redct; TIGR01746 395019011289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019011290 NAD(P) binding site [chemical binding]; other site 395019011291 active site 395019011292 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 395019011293 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395019011294 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 395019011295 active site 395019011296 phosphorylation site [posttranslational modification] 395019011297 intermolecular recognition site; other site 395019011298 dimerization interface [polypeptide binding]; other site 395019011299 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 395019011300 DNA binding site [nucleotide binding] 395019011301 CHASE2 domain; Region: CHASE2; pfam05226 395019011302 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395019011303 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 395019011304 ATP binding site [chemical binding]; other site 395019011305 Mg2+ binding site [ion binding]; other site 395019011306 G-X-G motif; other site 395019011307 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 395019011308 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 395019011309 trimer interface [polypeptide binding]; other site 395019011310 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395019011311 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019011312 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019011313 Haemagglutinin; Region: HIM; pfam05662 395019011314 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 395019011315 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 395019011316 Haemagglutinin; Region: HIM; pfam05662 395019011317 YadA-like C-terminal region; Region: YadA; pfam03895 395019011318 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 395019011319 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 395019011320 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395019011321 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019011322 ligand binding site [chemical binding]; other site 395019011323 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395019011324 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019011325 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 395019011326 dimerization interface [polypeptide binding]; other site 395019011327 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 395019011328 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 395019011329 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019011330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019011331 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 395019011332 putative substrate binding pocket [chemical binding]; other site 395019011333 putative dimerization interface [polypeptide binding]; other site 395019011334 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 395019011335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019011336 NAD(P) binding site [chemical binding]; other site 395019011337 active site 395019011338 Predicted esterase [General function prediction only]; Region: COG0627 395019011339 S-formylglutathione hydrolase; Region: PLN02442 395019011340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 395019011341 benzoate transport; Region: 2A0115; TIGR00895 395019011342 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 395019011343 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 395019011344 ABC-2 type transporter; Region: ABC2_membrane; cl17235 395019011345 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395019011346 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 395019011347 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 395019011348 Walker A/P-loop; other site 395019011349 ATP binding site [chemical binding]; other site 395019011350 Q-loop/lid; other site 395019011351 ABC transporter signature motif; other site 395019011352 Walker B; other site 395019011353 D-loop; other site 395019011354 H-loop/switch region; other site 395019011355 choline dehydrogenase; Validated; Region: PRK02106 395019011356 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395019011357 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 395019011358 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 395019011359 tetrameric interface [polypeptide binding]; other site 395019011360 NAD binding site [chemical binding]; other site 395019011361 catalytic residues [active] 395019011362 transcriptional regulator BetI; Validated; Region: PRK00767 395019011363 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019011364 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 395019011365 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 395019011366 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 395019011367 NAD binding site [chemical binding]; other site 395019011368 catalytic Zn binding site [ion binding]; other site 395019011369 structural Zn binding site [ion binding]; other site 395019011370 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019011371 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019011372 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019011373 substrate binding pocket [chemical binding]; other site 395019011374 dimerization interface [polypeptide binding]; other site 395019011375 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395019011376 EamA-like transporter family; Region: EamA; pfam00892 395019011377 EamA-like transporter family; Region: EamA; pfam00892 395019011378 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019011379 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019011380 DNA-binding site [nucleotide binding]; DNA binding site 395019011381 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 395019011382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019011383 homodimer interface [polypeptide binding]; other site 395019011384 catalytic residue [active] 395019011385 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 395019011386 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 395019011387 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 395019011388 sugar binding site [chemical binding]; other site 395019011389 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395019011390 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395019011391 conserved cys residue [active] 395019011392 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019011393 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 395019011394 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 395019011395 dimer interface [polypeptide binding]; other site 395019011396 active site 395019011397 glycine-pyridoxal phosphate binding site [chemical binding]; other site 395019011398 folate binding site [chemical binding]; other site 395019011399 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 395019011400 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 395019011401 active site 395019011402 dimer interface [polypeptide binding]; other site 395019011403 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 395019011404 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 395019011405 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 395019011406 putative active site [active] 395019011407 putative FMN binding site [chemical binding]; other site 395019011408 putative substrate binding site [chemical binding]; other site 395019011409 putative catalytic residue [active] 395019011410 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395019011411 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 395019011412 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 395019011413 4Fe-4S binding domain; Region: Fer4; cl02805 395019011414 Cysteine-rich domain; Region: CCG; pfam02754 395019011415 Cysteine-rich domain; Region: CCG; pfam02754 395019011416 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 395019011417 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 395019011418 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 395019011419 Electron transfer flavoprotein domain; Region: ETF; pfam01012 395019011420 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395019011421 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395019011422 [2Fe-2S] cluster binding site [ion binding]; other site 395019011423 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 395019011424 putative alpha subunit interface [polypeptide binding]; other site 395019011425 putative active site [active] 395019011426 putative substrate binding site [chemical binding]; other site 395019011427 Fe binding site [ion binding]; other site 395019011428 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395019011429 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_1; cd06215 395019011430 FAD binding pocket [chemical binding]; other site 395019011431 FAD binding motif [chemical binding]; other site 395019011432 phosphate binding motif [ion binding]; other site 395019011433 beta-alpha-beta structure motif; other site 395019011434 NAD binding pocket [chemical binding]; other site 395019011435 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 395019011436 catalytic loop [active] 395019011437 iron binding site [ion binding]; other site 395019011438 Transposase domain (DUF772); Region: DUF772; pfam05598 395019011439 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395019011440 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019011441 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 395019011442 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 395019011443 Amino acid permease; Region: AA_permease_2; pfam13520 395019011444 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395019011445 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395019011446 DNA binding site [nucleotide binding] 395019011447 domain linker motif; other site 395019011448 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 395019011449 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 395019011450 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395019011451 ligand binding site [chemical binding]; other site 395019011452 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395019011453 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 395019011454 Walker A/P-loop; other site 395019011455 ATP binding site [chemical binding]; other site 395019011456 Q-loop/lid; other site 395019011457 ABC transporter signature motif; other site 395019011458 Walker B; other site 395019011459 D-loop; other site 395019011460 H-loop/switch region; other site 395019011461 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 395019011462 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019011463 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019011464 TM-ABC transporter signature motif; other site 395019011465 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019011466 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019011467 TM-ABC transporter signature motif; other site 395019011468 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 395019011469 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 395019011470 Metal-binding active site; metal-binding site 395019011471 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 395019011472 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 395019011473 active site 395019011474 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 395019011475 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 395019011476 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 395019011477 putative active site [active] 395019011478 putative substrate binding site [chemical binding]; other site 395019011479 putative cosubstrate binding site; other site 395019011480 catalytic site [active] 395019011481 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019011482 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395019011483 Walker A/P-loop; other site 395019011484 ATP binding site [chemical binding]; other site 395019011485 Q-loop/lid; other site 395019011486 ABC transporter signature motif; other site 395019011487 Walker B; other site 395019011488 D-loop; other site 395019011489 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 395019011490 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 395019011491 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 395019011492 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019011493 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019011494 dimerization interface [polypeptide binding]; other site 395019011495 substrate binding pocket [chemical binding]; other site 395019011496 choline-sulfatase; Region: chol_sulfatase; TIGR03417 395019011497 Sulfatase; Region: Sulfatase; cl17466 395019011498 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 395019011499 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 395019011500 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 395019011501 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019011502 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019011503 trimer interface [polypeptide binding]; other site 395019011504 eyelet of channel; other site 395019011505 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 395019011506 putative substrate translocation pore; other site 395019011507 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 395019011508 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 395019011509 N-terminal plug; other site 395019011510 ligand-binding site [chemical binding]; other site 395019011511 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 395019011512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 395019011513 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 395019011514 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395019011515 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 395019011516 conserved cys residue [active] 395019011517 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019011518 Helix-turn-helix domain; Region: HTH_18; pfam12833 395019011519 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019011520 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 395019011521 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 395019011522 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019011523 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 395019011524 Cytochrome c; Region: Cytochrom_C; pfam00034 395019011525 Cytochrome c; Region: Cytochrom_C; pfam00034 395019011526 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395019011527 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019011528 NAD(P) binding site [chemical binding]; other site 395019011529 catalytic residues [active] 395019011530 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019011531 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019011532 eyelet of channel; other site 395019011533 trimer interface [polypeptide binding]; other site 395019011534 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 395019011535 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 395019011536 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 395019011537 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 395019011538 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395019011539 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395019011540 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 395019011541 active site 395019011542 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395019011543 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019011544 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 395019011545 short chain dehydrogenase; Provisional; Region: PRK06138 395019011546 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 395019011547 NAD binding site [chemical binding]; other site 395019011548 homotetramer interface [polypeptide binding]; other site 395019011549 homodimer interface [polypeptide binding]; other site 395019011550 active site 395019011551 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 395019011552 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395019011553 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 395019011554 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395019011555 putative active site pocket [active] 395019011556 metal binding site [ion binding]; metal-binding site 395019011557 short chain dehydrogenase; Provisional; Region: PRK08628 395019011558 classical (c) SDRs; Region: SDR_c; cd05233 395019011559 NAD(P) binding site [chemical binding]; other site 395019011560 active site 395019011561 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395019011562 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 395019011563 Walker A/P-loop; other site 395019011564 ATP binding site [chemical binding]; other site 395019011565 Q-loop/lid; other site 395019011566 ABC transporter signature motif; other site 395019011567 Walker B; other site 395019011568 D-loop; other site 395019011569 H-loop/switch region; other site 395019011570 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 395019011571 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019011572 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019011573 TM-ABC transporter signature motif; other site 395019011574 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 395019011575 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395019011576 putative ligand binding site [chemical binding]; other site 395019011577 Amidohydrolase; Region: Amidohydro_2; pfam04909 395019011578 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395019011579 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019011580 DNA-binding site [nucleotide binding]; DNA binding site 395019011581 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 395019011582 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019011583 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395019011584 amidohydrolase; Provisional; Region: PRK12393 395019011585 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 395019011586 active site 395019011587 putative substrate binding pocket [chemical binding]; other site 395019011588 xanthine permease; Region: pbuX; TIGR03173 395019011589 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395019011590 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 395019011591 P-loop, Walker A motif; other site 395019011592 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 395019011593 Base recognition motif; other site 395019011594 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 395019011595 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 395019011596 Flavoprotein; Region: Flavoprotein; pfam02441 395019011597 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 395019011598 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; cd01292 395019011599 active site 395019011600 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 395019011601 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 395019011602 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019011603 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 395019011604 dimerization interface [polypeptide binding]; other site 395019011605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019011606 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 395019011607 dimerization interface [polypeptide binding]; other site 395019011608 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 395019011609 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 395019011610 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395019011611 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395019011612 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395019011613 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019011614 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 395019011615 HAMP domain; Region: HAMP; pfam00672 395019011616 dimerization interface [polypeptide binding]; other site 395019011617 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019011618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019011619 metal binding site [ion binding]; metal-binding site 395019011620 active site 395019011621 I-site; other site 395019011622 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 395019011623 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019011624 ligand binding site [chemical binding]; other site 395019011625 PAAR motif; Region: PAAR_motif; pfam05488 395019011626 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 395019011627 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019011628 catalytic residue [active] 395019011629 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019011630 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395019011631 dimerization interface [polypeptide binding]; other site 395019011632 ligand binding site [chemical binding]; other site 395019011633 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019011634 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395019011635 TM-ABC transporter signature motif; other site 395019011636 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 395019011637 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 395019011638 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395019011639 TM-ABC transporter signature motif; other site 395019011640 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 395019011641 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395019011642 Walker A/P-loop; other site 395019011643 ATP binding site [chemical binding]; other site 395019011644 Q-loop/lid; other site 395019011645 ABC transporter signature motif; other site 395019011646 Walker B; other site 395019011647 D-loop; other site 395019011648 H-loop/switch region; other site 395019011649 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395019011650 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395019011651 Walker A/P-loop; other site 395019011652 ATP binding site [chemical binding]; other site 395019011653 Q-loop/lid; other site 395019011654 ABC transporter signature motif; other site 395019011655 Walker B; other site 395019011656 D-loop; other site 395019011657 H-loop/switch region; other site 395019011658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019011659 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019011660 LysR substrate binding domain; Region: LysR_substrate; pfam03466 395019011661 dimerization interface [polypeptide binding]; other site 395019011662 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 395019011663 EamA-like transporter family; Region: EamA; pfam00892 395019011664 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395019011665 EamA-like transporter family; Region: EamA; pfam00892 395019011666 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_5; cd07238 395019011667 dimer interface [polypeptide binding]; other site 395019011668 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019011669 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 395019011670 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 395019011671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019011672 Helix-turn-helix domain; Region: HTH_18; pfam12833 395019011673 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019011674 hypothetical protein; Validated; Region: PRK08238 395019011675 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 395019011676 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 395019011677 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 395019011678 Leucine rich repeat; Region: LRR_8; pfam13855 395019011679 Leucine rich repeat; Region: LRR_8; pfam13855 395019011680 Protein kinase; unclassified specificity; Region: STYKc; smart00221 395019011681 Catalytic domain of Protein Kinases; Region: PKc; cd00180 395019011682 active site 395019011683 ATP binding site [chemical binding]; other site 395019011684 substrate binding site [chemical binding]; other site 395019011685 activation loop (A-loop); other site 395019011686 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 395019011687 putative hydrophobic ligand binding site [chemical binding]; other site 395019011688 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 395019011689 catalytic loop [active] 395019011690 iron binding site [ion binding]; other site 395019011691 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 395019011692 GAF domain; Region: GAF; pfam01590 395019011693 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 395019011694 Walker A motif; other site 395019011695 ATP binding site [chemical binding]; other site 395019011696 Walker B motif; other site 395019011697 arginine finger; other site 395019011698 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395019011699 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 395019011700 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 395019011701 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 395019011702 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 395019011703 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 395019011704 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 395019011705 short chain dehydrogenase; Validated; Region: PRK05855 395019011706 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395019011707 classical (c) SDRs; Region: SDR_c; cd05233 395019011708 NAD(P) binding site [chemical binding]; other site 395019011709 active site 395019011710 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 395019011711 active site 395019011712 Abi-like protein; Region: Abi_2; pfam07751 395019011713 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 395019011714 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 395019011715 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 395019011716 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 395019011717 active site residues [active] 395019011718 dimer interface [polypeptide binding]; other site 395019011719 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 395019011720 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395019011721 Helix-turn-helix domain; Region: HTH_18; pfam12833 395019011722 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395019011723 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395019011724 active site 395019011725 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 395019011726 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 395019011727 active site 395019011728 acyl-activating enzyme (AAE) consensus motif; other site 395019011729 putative CoA binding site [chemical binding]; other site 395019011730 AMP binding site [chemical binding]; other site 395019011731 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 395019011732 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 395019011733 tetrameric interface [polypeptide binding]; other site 395019011734 NAD binding site [chemical binding]; other site 395019011735 catalytic residues [active] 395019011736 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395019011737 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 395019011738 enoyl-CoA hydratase; Provisional; Region: PRK09076 395019011739 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 395019011740 substrate binding site [chemical binding]; other site 395019011741 oxyanion hole (OAH) forming residues; other site 395019011742 trimer interface [polypeptide binding]; other site 395019011743 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 395019011744 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 395019011745 substrate binding site [chemical binding]; other site 395019011746 oxyanion hole (OAH) forming residues; other site 395019011747 trimer interface [polypeptide binding]; other site 395019011748 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 395019011749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019011750 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019011751 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_6; cd08475 395019011752 putative effector binding pocket; other site 395019011753 putative dimerization interface [polypeptide binding]; other site 395019011754 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 395019011755 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 395019011756 HD domain; Region: HD_3; pfam13023 395019011757 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019011758 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 395019011759 non-specific DNA binding site [nucleotide binding]; other site 395019011760 salt bridge; other site 395019011761 sequence-specific DNA binding site [nucleotide binding]; other site 395019011762 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 395019011763 B1 nucleotide binding pocket [chemical binding]; other site 395019011764 B2 nucleotide binding pocket [chemical binding]; other site 395019011765 CAS motifs; other site 395019011766 active site 395019011767 Isochorismatase family; Region: Isochorismatase; pfam00857 395019011768 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 395019011769 catalytic triad [active] 395019011770 conserved cis-peptide bond; other site 395019011771 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395019011772 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019011773 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019011774 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 395019011775 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 395019011776 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395019011777 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019011778 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395019011779 Uncharacterized conserved protein [Function unknown]; Region: COG3268 395019011780 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019011781 NAD(P) binding site [chemical binding]; other site 395019011782 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395019011783 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 395019011784 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 395019011785 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 395019011786 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 395019011787 dimer interface [polypeptide binding]; other site 395019011788 ADP-ribose binding site [chemical binding]; other site 395019011789 active site 395019011790 nudix motif; other site 395019011791 metal binding site [ion binding]; metal-binding site 395019011792 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 395019011793 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 395019011794 glutaminase; Provisional; Region: PRK00971 395019011795 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 395019011796 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 395019011797 active site 395019011798 phosphorylation site [posttranslational modification] 395019011799 intermolecular recognition site; other site 395019011800 dimerization interface [polypeptide binding]; other site 395019011801 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 395019011802 DNA binding site [nucleotide binding] 395019011803 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 395019011804 dimer interface [polypeptide binding]; other site 395019011805 phosphorylation site [posttranslational modification] 395019011806 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 395019011807 ATP binding site [chemical binding]; other site 395019011808 Mg2+ binding site [ion binding]; other site 395019011809 G-X-G motif; other site 395019011810 DctM-like transporters; Region: DctM; pfam06808 395019011811 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 395019011812 DctM-like transporters; Region: DctM; pfam06808 395019011813 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 395019011814 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 395019011815 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395019011816 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 395019011817 PAS domain S-box; Region: sensory_box; TIGR00229 395019011818 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 395019011819 putative active site [active] 395019011820 heme pocket [chemical binding]; other site 395019011821 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 395019011822 dimer interface [polypeptide binding]; other site 395019011823 phosphorylation site [posttranslational modification] 395019011824 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 395019011825 ATP binding site [chemical binding]; other site 395019011826 Mg2+ binding site [ion binding]; other site 395019011827 G-X-G motif; other site 395019011828 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395019011829 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 395019011830 active site 395019011831 phosphorylation site [posttranslational modification] 395019011832 intermolecular recognition site; other site 395019011833 dimerization interface [polypeptide binding]; other site 395019011834 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 395019011835 DNA binding residues [nucleotide binding] 395019011836 dimerization interface [polypeptide binding]; other site 395019011837 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 395019011838 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 395019011839 active site 395019011840 nucleophile elbow; other site 395019011841 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 395019011842 Surface antigen; Region: Bac_surface_Ag; pfam01103 395019011843 rod shape-determining protein MreB; Provisional; Region: PRK13930 395019011844 MreB and similar proteins; Region: MreB_like; cd10225 395019011845 nucleotide binding site [chemical binding]; other site 395019011846 Mg binding site [ion binding]; other site 395019011847 putative protofilament interaction site [polypeptide binding]; other site 395019011848 RodZ interaction site [polypeptide binding]; other site 395019011849 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 395019011850 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 395019011851 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019011852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019011853 The C-terminal substrate-binding domain of LysR-type trnascriptional regulator BlaA which involved in control of the beta-lactamase gene expression; contains the type 2 periplasmic binding fold; Region: PBP2_BlaA; cd08487 395019011854 putative dimerization interface [polypeptide binding]; other site 395019011855 putative substrate binding pocket [chemical binding]; other site 395019011856 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 395019011857 sensor protein QseC; Provisional; Region: PRK10337 395019011858 HAMP domain; Region: HAMP; pfam00672 395019011859 dimerization interface [polypeptide binding]; other site 395019011860 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 395019011861 dimer interface [polypeptide binding]; other site 395019011862 phosphorylation site [posttranslational modification] 395019011863 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 395019011864 ATP binding site [chemical binding]; other site 395019011865 Mg2+ binding site [ion binding]; other site 395019011866 G-X-G motif; other site 395019011867 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 395019011868 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 395019011869 active site 395019011870 phosphorylation site [posttranslational modification] 395019011871 intermolecular recognition site; other site 395019011872 dimerization interface [polypeptide binding]; other site 395019011873 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 395019011874 DNA binding site [nucleotide binding] 395019011875 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 395019011876 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395019011877 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395019011878 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 395019011879 putative active site [active] 395019011880 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 395019011881 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 395019011882 tetramer interface [polypeptide binding]; other site 395019011883 active site 395019011884 Mg2+/Mn2+ binding site [ion binding]; other site 395019011885 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 395019011886 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 395019011887 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 395019011888 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 395019011889 active site residue [active] 395019011890 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 395019011891 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395019011892 conserved cys residue [active] 395019011893 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019011894 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019011895 arginine decarboxylase; Provisional; Region: PRK15029 395019011896 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 395019011897 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 395019011898 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019011899 catalytic residue [active] 395019011900 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 395019011901 arginine:agmatin antiporter; Provisional; Region: PRK10644 395019011902 hypothetical protein; Provisional; Region: PRK07907 395019011903 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 395019011904 metal binding site [ion binding]; metal-binding site 395019011905 putative dimer interface [polypeptide binding]; other site 395019011906 putative dehydrogenase; Provisional; Region: PRK10098 395019011907 TfoX N-terminal domain; Region: TfoX_N; pfam04993 395019011908 NnrU protein; Region: NnrU; pfam07298 395019011909 hypothetical protein; Provisional; Region: PRK10621 395019011910 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395019011911 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 395019011912 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 395019011913 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 395019011914 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 395019011915 Outer membrane efflux protein; Region: OEP; pfam02321 395019011916 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 395019011917 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 bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 395019011918 putative active site [active] 395019011919 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395019011920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019011921 Walker A/P-loop; other site 395019011922 ATP binding site [chemical binding]; other site 395019011923 Q-loop/lid; other site 395019011924 ABC transporter signature motif; other site 395019011925 Walker B; other site 395019011926 D-loop; other site 395019011927 H-loop/switch region; other site 395019011928 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 395019011929 Peptidase family M23; Region: Peptidase_M23; pfam01551 395019011930 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019011931 Protein of unknown function, DUF488; Region: DUF488; pfam04343 395019011932 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 395019011933 Right handed beta helix region; Region: Beta_helix; pfam13229 395019011934 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019011935 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 395019011936 active site 395019011937 phosphorylation site [posttranslational modification] 395019011938 intermolecular recognition site; other site 395019011939 dimerization interface [polypeptide binding]; other site 395019011940 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 395019011941 DNA binding residues [nucleotide binding] 395019011942 dimerization interface [polypeptide binding]; other site 395019011943 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019011944 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 395019011945 dimer interface [polypeptide binding]; other site 395019011946 phosphorylation site [posttranslational modification] 395019011947 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 395019011948 ATP binding site [chemical binding]; other site 395019011949 Mg2+ binding site [ion binding]; other site 395019011950 G-X-G motif; other site 395019011951 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395019011952 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019011953 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019011954 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 395019011955 non-specific DNA binding site [nucleotide binding]; other site 395019011956 salt bridge; other site 395019011957 sequence-specific DNA binding site [nucleotide binding]; other site 395019011958 Cupin domain; Region: Cupin_2; pfam07883 395019011959 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 395019011960 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 395019011961 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395019011962 hydrophobic ligand binding site; other site 395019011963 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019011964 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019011965 DNA-binding site [nucleotide binding]; DNA binding site 395019011966 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 395019011967 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019011968 homodimer interface [polypeptide binding]; other site 395019011969 catalytic residue [active] 395019011970 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395019011971 EamA-like transporter family; Region: EamA; pfam00892 395019011972 diaminopimelate decarboxylase; Provisional; Region: PRK11165 395019011973 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 395019011974 active site 395019011975 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395019011976 substrate binding site [chemical binding]; other site 395019011977 catalytic residues [active] 395019011978 dimer interface [polypeptide binding]; other site 395019011979 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 395019011980 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019011981 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 395019011982 dimerization interface [polypeptide binding]; other site 395019011983 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 395019011984 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395019011985 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 395019011986 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 395019011987 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019011988 Coenzyme A binding pocket [chemical binding]; other site 395019011989 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 395019011990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 395019011991 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 395019011992 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 395019011993 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019011994 putative substrate translocation pore; other site 395019011995 Trehalase; Region: Trehalase; cl17346 395019011996 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 395019011997 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 395019011998 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 395019011999 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395019012000 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019012001 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 395019012002 DNA binding residues [nucleotide binding] 395019012003 dimerization interface [polypeptide binding]; other site 395019012004 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395019012005 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; cl17315 395019012006 DNA binding residues [nucleotide binding] 395019012007 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 395019012008 FHIPEP family; Region: FHIPEP; pfam00771 395019012009 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 395019012010 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 395019012011 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 395019012012 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 395019012013 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395019012014 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 395019012015 type III secretion system protein; Reviewed; Region: PRK06937 395019012016 Flagellar assembly protein FliH; Region: FliH; pfam02108 395019012017 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 395019012018 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 395019012019 Walker A motif/ATP binding site; other site 395019012020 Walker B motif; other site 395019012021 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 395019012022 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 395019012023 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 395019012024 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 395019012025 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 395019012026 active site 395019012027 dimer interface [polypeptide binding]; other site 395019012028 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 395019012029 Ligand Binding Site [chemical binding]; other site 395019012030 Molecular Tunnel; other site 395019012031 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 395019012032 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 395019012033 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395019012034 catalytic residue [active] 395019012035 type III secretion system protein YscR; Provisional; Region: PRK12797 395019012036 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 395019012037 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 395019012038 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 395019012039 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 395019012040 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395019012041 DNA binding site [nucleotide binding] 395019012042 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395019012043 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019012044 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395019012045 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019012046 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 395019012047 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 395019012048 catalytic loop [active] 395019012049 iron binding site [ion binding]; other site 395019012050 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395019012051 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 395019012052 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019012053 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019012054 YciI-like protein; Reviewed; Region: PRK12863 395019012055 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 395019012056 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 395019012057 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395019012058 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395019012059 short chain dehydrogenase; Provisional; Region: PRK07577 395019012060 classical (c) SDRs; Region: SDR_c; cd05233 395019012061 NAD(P) binding site [chemical binding]; other site 395019012062 active site 395019012063 Putative cyclase; Region: Cyclase; pfam04199 395019012064 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019012065 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 395019012066 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 395019012067 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 395019012068 DXD motif; other site 395019012069 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 395019012070 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 395019012071 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 395019012072 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 395019012073 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 395019012074 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 395019012075 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 395019012076 NAD binding site [chemical binding]; other site 395019012077 homodimer interface [polypeptide binding]; other site 395019012078 active site 395019012079 substrate binding site [chemical binding]; other site 395019012080 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 395019012081 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395019012082 NAD binding site [chemical binding]; other site 395019012083 putative substrate binding site 2 [chemical binding]; other site 395019012084 putative substrate binding site 1 [chemical binding]; other site 395019012085 active site 395019012086 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08691 395019012087 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395019012088 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 395019012089 Walker A motif; other site 395019012090 ATP binding site [chemical binding]; other site 395019012091 Walker B motif; other site 395019012092 arginine finger; other site 395019012093 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 395019012094 DNA-binding interface [nucleotide binding]; DNA binding site 395019012095 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019012096 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 395019012097 DNA binding residues [nucleotide binding] 395019012098 dimerization interface [polypeptide binding]; other site 395019012099 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 395019012100 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 395019012101 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 395019012102 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019012103 dimer interface [polypeptide binding]; other site 395019012104 putative CheW interface [polypeptide binding]; other site 395019012105 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 395019012106 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 395019012107 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 395019012108 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 395019012109 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019012110 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019012111 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 395019012112 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395019012113 putative ligand binding site [chemical binding]; other site 395019012114 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395019012115 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 395019012116 Walker A/P-loop; other site 395019012117 ATP binding site [chemical binding]; other site 395019012118 Q-loop/lid; other site 395019012119 ABC transporter signature motif; other site 395019012120 Walker B; other site 395019012121 D-loop; other site 395019012122 H-loop/switch region; other site 395019012123 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 395019012124 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019012125 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019012126 TM-ABC transporter signature motif; other site 395019012127 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395019012128 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH2; cd08256 395019012129 putative NAD(P) binding site [chemical binding]; other site 395019012130 catalytic Zn binding site [ion binding]; other site 395019012131 structural Zn binding site [ion binding]; other site 395019012132 L-fuculokinase; Provisional; Region: PRK10331 395019012133 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 395019012134 N- and C-terminal domain interface [polypeptide binding]; other site 395019012135 putative active site [active] 395019012136 MgATP binding site [chemical binding]; other site 395019012137 catalytic site [active] 395019012138 metal binding site [ion binding]; metal-binding site 395019012139 putative xylulose binding site [chemical binding]; other site 395019012140 putative homodimer interface [polypeptide binding]; other site 395019012141 short chain dehydrogenase; Provisional; Region: PRK07060 395019012142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019012143 NAD(P) binding site [chemical binding]; other site 395019012144 active site 395019012145 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 395019012146 metal-binding site 395019012147 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 395019012148 putative active site [active] 395019012149 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 395019012150 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 395019012151 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 395019012152 Sel1-like repeats; Region: SEL1; smart00671 395019012153 Sel1 repeat; Region: Sel1; cl02723 395019012154 Sel1 repeat; Region: Sel1; cl02723 395019012155 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 395019012156 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 395019012157 N-terminal plug; other site 395019012158 ligand-binding site [chemical binding]; other site 395019012159 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 395019012160 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 395019012161 oligomeric interface; other site 395019012162 putative active site [active] 395019012163 homodimer interface [polypeptide binding]; other site 395019012164 aspartate carbamoyltransferase; Provisional; Region: PRK11891 395019012165 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 395019012166 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 395019012167 Predicted small secreted protein [Function unknown]; Region: COG5510 395019012168 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395019012169 EamA-like transporter family; Region: EamA; pfam00892 395019012170 EamA-like transporter family; Region: EamA; pfam00892 395019012171 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 395019012172 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019012173 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019012174 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 395019012175 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 395019012176 classical (c) SDRs; Region: SDR_c; cd05233 395019012177 NAD(P) binding site [chemical binding]; other site 395019012178 active site 395019012179 short chain dehydrogenase; Provisional; Region: PRK12828 395019012180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019012181 NAD(P) binding site [chemical binding]; other site 395019012182 active site 395019012183 H-NS histone family; Region: Histone_HNS; pfam00816 395019012184 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 395019012185 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 395019012186 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 395019012187 putative substrate translocation pore; other site 395019012188 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019012189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012190 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 395019012191 dimerization interface [polypeptide binding]; other site 395019012192 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019012193 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012194 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 395019012195 putative effector binding pocket; other site 395019012196 dimerization interface [polypeptide binding]; other site 395019012197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019012198 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395019012199 NAD(P) binding site [chemical binding]; other site 395019012200 active site 395019012201 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 395019012202 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 395019012203 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019012204 putative substrate translocation pore; other site 395019012205 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019012206 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012207 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 395019012208 dimerization interface [polypeptide binding]; other site 395019012209 classical (c) SDRs; Region: SDR_c; cd05233 395019012210 NAD(P) binding site [chemical binding]; other site 395019012211 active site 395019012212 Predicted metalloprotease [General function prediction only]; Region: COG2321 395019012213 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 395019012214 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019012215 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 395019012216 DNA binding residues [nucleotide binding] 395019012217 dimerization interface [polypeptide binding]; other site 395019012218 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395019012219 hypothetical protein; Provisional; Region: PRK07481 395019012220 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 395019012221 inhibitor-cofactor binding pocket; inhibition site 395019012222 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019012223 catalytic residue [active] 395019012224 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 395019012225 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 395019012226 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019012227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019012228 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019012229 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019012230 trimer interface [polypeptide binding]; other site 395019012231 eyelet of channel; other site 395019012232 Sulphur transport; Region: Sulf_transp; pfam04143 395019012233 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395019012234 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 395019012235 active site 395019012236 NUMOD4 motif; Region: NUMOD4; pfam07463 395019012237 HNH endonuclease; Region: HNH_3; pfam13392 395019012238 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 395019012239 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 395019012240 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019012241 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 395019012242 non-specific DNA binding site [nucleotide binding]; other site 395019012243 salt bridge; other site 395019012244 sequence-specific DNA binding site [nucleotide binding]; other site 395019012245 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 395019012246 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 395019012247 Helix-turn-helix domain; Region: HTH_36; pfam13730 395019012248 Phage endonuclease I; Region: Phage_endo_I; cl11622 395019012249 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 395019012250 putative DNA binding site [nucleotide binding]; other site 395019012251 putative Zn2+ binding site [ion binding]; other site 395019012252 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 395019012253 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 395019012254 Phage-related protein [Function unknown]; Region: COG4695; cl01923 395019012255 Phage portal protein; Region: Phage_portal; pfam04860 395019012256 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 395019012257 oligomer interface [polypeptide binding]; other site 395019012258 active site residues [active] 395019012259 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 395019012260 Phage capsid family; Region: Phage_capsid; pfam05065 395019012261 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 395019012262 oligomerization interface [polypeptide binding]; other site 395019012263 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 395019012264 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 395019012265 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 395019012266 Phage tail assembly chaperone; Region: Phage_TAC; pfam06222 395019012267 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 395019012268 Phage-related minor tail protein [Function unknown]; Region: COG5281 395019012269 tape measure domain; Region: tape_meas_nterm; TIGR02675 395019012270 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 395019012271 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 395019012272 Phage minor tail protein; Region: Phage_min_tail; pfam05939 395019012273 Phage-related protein [Function unknown]; Region: gp18; COG4672 395019012274 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 395019012275 MPN+ (JAMM) motif; other site 395019012276 Zinc-binding site [ion binding]; other site 395019012277 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 395019012278 NlpC/P60 family; Region: NLPC_P60; cl17555 395019012279 Phage-related protein, tail component [Function unknown]; Region: COG4723 395019012280 Phage-related protein, tail component [Function unknown]; Region: COG4733 395019012281 Putative phage tail protein; Region: Phage-tail_3; pfam13550 395019012282 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 395019012283 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 395019012284 catalytic residue [active] 395019012285 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 395019012286 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 395019012287 catalytic residues [active] 395019012288 catalytic nucleophile [active] 395019012289 Recombinase; Region: Recombinase; pfam07508 395019012290 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395019012291 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 395019012292 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 395019012293 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 395019012294 FMN binding site [chemical binding]; other site 395019012295 active site 395019012296 substrate binding site [chemical binding]; other site 395019012297 catalytic residue [active] 395019012298 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 395019012299 dimerization interface [polypeptide binding]; other site 395019012300 putative DNA binding site [nucleotide binding]; other site 395019012301 putative Zn2+ binding site [ion binding]; other site 395019012302 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019012303 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 395019012304 putative substrate translocation pore; other site 395019012305 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 395019012306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012307 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 395019012308 putative dimerization interface [polypeptide binding]; other site 395019012309 putative substrate binding pocket [chemical binding]; other site 395019012310 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 395019012311 nucleophile elbow; other site 395019012312 Patatin phospholipase; Region: DUF3734; pfam12536 395019012313 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 395019012314 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 395019012315 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 395019012316 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395019012317 active site 395019012318 metal binding site [ion binding]; metal-binding site 395019012319 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 395019012320 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 395019012321 dimer interface [polypeptide binding]; other site 395019012322 conserved gate region; other site 395019012323 putative PBP binding loops; other site 395019012324 ABC-ATPase subunit interface; other site 395019012325 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 395019012326 dimer interface [polypeptide binding]; other site 395019012327 conserved gate region; other site 395019012328 putative PBP binding loops; other site 395019012329 ABC-ATPase subunit interface; other site 395019012330 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395019012331 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395019012332 Walker A/P-loop; other site 395019012333 ATP binding site [chemical binding]; other site 395019012334 Q-loop/lid; other site 395019012335 ABC transporter signature motif; other site 395019012336 Walker B; other site 395019012337 D-loop; other site 395019012338 H-loop/switch region; other site 395019012339 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 395019012340 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 395019012341 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 395019012342 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 395019012343 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 395019012344 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 395019012345 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 395019012346 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 395019012347 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 395019012348 Walker A motif; other site 395019012349 ATP binding site [chemical binding]; other site 395019012350 Walker B motif; other site 395019012351 arginine finger; other site 395019012352 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 395019012353 Walker A motif; other site 395019012354 ATP binding site [chemical binding]; other site 395019012355 Walker B motif; other site 395019012356 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 395019012357 Protein of unknown function (DUF770); Region: DUF770; pfam05591 395019012358 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 395019012359 Protein of unknown function (DUF877); Region: DUF877; pfam05943 395019012360 Protein of unknown function (DUF796); Region: DUF796; pfam05638 395019012361 type VI secretion lipoprotein, VC_A0113 family; Region: VI_chp_3; TIGR03352 395019012362 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019012363 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019012364 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019012365 HTH-like domain; Region: HTH_21; pfam13276 395019012366 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395019012367 Integrase core domain; Region: rve; pfam00665 395019012368 Integrase core domain; Region: rve_2; pfam13333 395019012369 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 395019012370 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 395019012371 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 395019012372 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 395019012373 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 395019012374 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 395019012375 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 395019012376 PAAR motif; Region: PAAR_motif; pfam05488 395019012377 hypothetical protein; Provisional; Region: PRK08126 395019012378 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 395019012379 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019012380 ligand binding site [chemical binding]; other site 395019012381 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 395019012382 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 395019012383 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 395019012384 hypothetical protein; Provisional; Region: PRK07033 395019012385 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 395019012386 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019012387 ligand binding site [chemical binding]; other site 395019012388 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 395019012389 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 395019012390 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 395019012391 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019012392 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019012393 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019012394 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019012395 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012396 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 395019012397 dimerization interface [polypeptide binding]; other site 395019012398 substrate binding pocket [chemical binding]; other site 395019012399 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395019012400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019012401 NAD(P) binding site [chemical binding]; other site 395019012402 active site 395019012403 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 395019012404 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 395019012405 DNA binding residues [nucleotide binding] 395019012406 dimer interface [polypeptide binding]; other site 395019012407 [2Fe-2S] cluster binding site [ion binding]; other site 395019012408 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395019012409 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019012410 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019012411 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395019012412 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019012413 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395019012414 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 395019012415 Na binding site [ion binding]; other site 395019012416 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019012417 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012418 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 395019012419 putative dimerization interface [polypeptide binding]; other site 395019012420 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 395019012421 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019012422 putative substrate translocation pore; other site 395019012423 Isochorismatase family; Region: Isochorismatase; pfam00857 395019012424 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 395019012425 catalytic triad [active] 395019012426 conserved cis-peptide bond; other site 395019012427 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019012428 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019012429 trimer interface [polypeptide binding]; other site 395019012430 eyelet of channel; other site 395019012431 putative transposase OrfB; Reviewed; Region: PHA02517 395019012432 HTH-like domain; Region: HTH_21; pfam13276 395019012433 Integrase core domain; Region: rve; pfam00665 395019012434 Integrase core domain; Region: rve_2; pfam13333 395019012435 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019012436 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019012437 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019012438 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 395019012439 Colicin-E5 Imm protein; Region: ImmE5; pfam11480 395019012440 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 395019012441 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019012442 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 395019012443 FOG: CBS domain [General function prediction only]; Region: COG0517 395019012444 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 395019012445 dimerization interface [polypeptide binding]; other site 395019012446 active site 395019012447 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019012448 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019012449 DNA-binding site [nucleotide binding]; DNA binding site 395019012450 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 395019012451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019012452 homodimer interface [polypeptide binding]; other site 395019012453 catalytic residue [active] 395019012454 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019012455 Coenzyme A binding pocket [chemical binding]; other site 395019012456 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 395019012457 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 395019012458 classical (c) SDRs; Region: SDR_c; cd05233 395019012459 NAD(P) binding site [chemical binding]; other site 395019012460 active site 395019012461 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 395019012462 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019012463 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019012464 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395019012465 Cupin domain; Region: Cupin_2; pfam07883 395019012466 Cupin; Region: Cupin_6; pfam12852 395019012467 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019012468 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019012469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019012470 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 395019012471 dimer interface [polypeptide binding]; other site 395019012472 FMN binding site [chemical binding]; other site 395019012473 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 395019012474 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395019012475 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395019012476 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 395019012477 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 395019012478 C-terminal domain interface [polypeptide binding]; other site 395019012479 GSH binding site (G-site) [chemical binding]; other site 395019012480 dimer interface [polypeptide binding]; other site 395019012481 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 395019012482 dimer interface [polypeptide binding]; other site 395019012483 N-terminal domain interface [polypeptide binding]; other site 395019012484 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 395019012485 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019012486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019012487 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395019012488 NAD(P) binding site [chemical binding]; other site 395019012489 active site 395019012490 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 395019012491 Cupin; Region: Cupin_6; pfam12852 395019012492 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019012493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019012494 Protein of unknown function, DUF417; Region: DUF417; cl01162 395019012495 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019012496 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019012497 DNA-binding site [nucleotide binding]; DNA binding site 395019012498 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 395019012499 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019012500 homodimer interface [polypeptide binding]; other site 395019012501 catalytic residue [active] 395019012502 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 395019012503 hypothetical protein; Provisional; Region: PRK05409 395019012504 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 395019012505 allantoate amidohydrolase; Reviewed; Region: PRK12890 395019012506 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 395019012507 active site 395019012508 metal binding site [ion binding]; metal-binding site 395019012509 dimer interface [polypeptide binding]; other site 395019012510 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 395019012511 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019012512 catalytic residue [active] 395019012513 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019012514 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 395019012515 putative DNA binding site [nucleotide binding]; other site 395019012516 putative Zn2+ binding site [ion binding]; other site 395019012517 AsnC family; Region: AsnC_trans_reg; pfam01037 395019012518 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395019012519 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395019012520 metal binding site [ion binding]; metal-binding site 395019012521 putative dimer interface [polypeptide binding]; other site 395019012522 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 395019012523 Autoinducer synthetase; Region: Autoind_synth; cl17404 395019012524 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 395019012525 Autoinducer binding domain; Region: Autoind_bind; pfam03472 395019012526 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 395019012527 DNA binding residues [nucleotide binding] 395019012528 dimerization interface [polypeptide binding]; other site 395019012529 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 395019012530 MgtC family; Region: MgtC; pfam02308 395019012531 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 395019012532 Fusaric acid resistance protein family; Region: FUSC; pfam04632 395019012533 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 395019012534 multidrug resistance protein MdtN; Provisional; Region: PRK10476 395019012535 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019012536 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019012537 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 395019012538 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395019012539 putative active site [active] 395019012540 putative metal binding site [ion binding]; other site 395019012541 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 395019012542 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395019012543 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019012544 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019012545 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019012546 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019012547 trimer interface [polypeptide binding]; other site 395019012548 eyelet of channel; other site 395019012549 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 395019012550 [2Fe-2S] cluster binding site [ion binding]; other site 395019012551 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395019012552 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395019012553 [2Fe-2S] cluster binding site [ion binding]; other site 395019012554 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395019012555 hydrophobic ligand binding site; other site 395019012556 short chain dehydrogenase; Provisional; Region: PRK12939 395019012557 classical (c) SDRs; Region: SDR_c; cd05233 395019012558 NAD(P) binding site [chemical binding]; other site 395019012559 active site 395019012560 Cupin domain; Region: Cupin_2; pfam07883 395019012561 Serine hydrolase; Region: Ser_hydrolase; cl17834 395019012562 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019012563 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395019012564 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019012565 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019012566 short chain dehydrogenase; Provisional; Region: PRK07062 395019012567 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395019012568 putative NAD(P) binding site [chemical binding]; other site 395019012569 putative active site [active] 395019012570 hypothetical protein; Provisional; Region: PRK07064 395019012571 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395019012572 PYR/PP interface [polypeptide binding]; other site 395019012573 dimer interface [polypeptide binding]; other site 395019012574 TPP binding site [chemical binding]; other site 395019012575 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395019012576 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 395019012577 TPP-binding site [chemical binding]; other site 395019012578 L-aspartate dehydrogenase; Provisional; Region: PRK13303 395019012579 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 395019012580 Domain of unknown function DUF108; Region: DUF108; pfam01958 395019012581 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019012582 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 395019012583 NAD(P) binding site [chemical binding]; other site 395019012584 catalytic residues [active] 395019012585 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 395019012586 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 395019012587 active site 395019012588 metal binding site [ion binding]; metal-binding site 395019012589 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 395019012590 putative active site [active] 395019012591 putative metal binding site [ion binding]; other site 395019012592 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 395019012593 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019012594 benzoate transport; Region: 2A0115; TIGR00895 395019012595 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 395019012596 putative substrate translocation pore; other site 395019012597 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 395019012598 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 395019012599 trimer interface [polypeptide binding]; other site 395019012600 putative Zn binding site [ion binding]; other site 395019012601 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 395019012602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 395019012603 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 395019012604 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 395019012605 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 395019012606 Ligand Binding Site [chemical binding]; other site 395019012607 amidase; Provisional; Region: PRK07486 395019012608 Amidase; Region: Amidase; pfam01425 395019012609 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 395019012610 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 395019012611 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 395019012612 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 395019012613 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 395019012614 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 395019012615 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 395019012616 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 395019012617 active site 1 [active] 395019012618 dimer interface [polypeptide binding]; other site 395019012619 hexamer interface [polypeptide binding]; other site 395019012620 active site 2 [active] 395019012621 aldolase II superfamily protein; Provisional; Region: PRK07044 395019012622 intersubunit interface [polypeptide binding]; other site 395019012623 active site 395019012624 Zn2+ binding site [ion binding]; other site 395019012625 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 395019012626 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395019012627 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395019012628 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 395019012629 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 395019012630 short chain dehydrogenase; Provisional; Region: PRK07832 395019012631 classical (c) SDRs; Region: SDR_c; cd05233 395019012632 NAD(P) binding site [chemical binding]; other site 395019012633 active site 395019012634 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 395019012635 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 395019012636 YhhN-like protein; Region: YhhN; pfam07947 395019012637 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395019012638 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 395019012639 substrate binding pocket [chemical binding]; other site 395019012640 membrane-bound complex binding site; other site 395019012641 hinge residues; other site 395019012642 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 395019012643 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395019012644 DNA binding residues [nucleotide binding] 395019012645 putative dimer interface [polypeptide binding]; other site 395019012646 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 395019012647 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 395019012648 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 395019012649 putative substrate translocation pore; other site 395019012650 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 395019012651 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395019012652 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 395019012653 dimer interface [polypeptide binding]; other site 395019012654 ligand binding site [chemical binding]; other site 395019012655 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 395019012656 dimerization interface [polypeptide binding]; other site 395019012657 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019012658 dimer interface [polypeptide binding]; other site 395019012659 putative CheW interface [polypeptide binding]; other site 395019012660 Part of AAA domain; Region: AAA_19; pfam13245 395019012661 Family description; Region: UvrD_C_2; pfam13538 395019012662 BetR domain; Region: BetR; pfam08667 395019012663 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 395019012664 active site 395019012665 phosphorylation site [posttranslational modification] 395019012666 intermolecular recognition site; other site 395019012667 dimerization interface [polypeptide binding]; other site 395019012668 Ion channel; Region: Ion_trans_2; pfam07885 395019012669 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 395019012670 TrkA-N domain; Region: TrkA_N; pfam02254 395019012671 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 395019012672 classical (c) SDRs; Region: SDR_c; cd05233 395019012673 NAD(P) binding site [chemical binding]; other site 395019012674 active site 395019012675 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019012676 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012677 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 395019012678 substrate binding pocket [chemical binding]; other site 395019012679 dimerization interface [polypeptide binding]; other site 395019012680 salicylate hydroxylase; Provisional; Region: PRK08163 395019012681 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395019012682 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395019012683 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395019012684 Walker A/P-loop; other site 395019012685 ATP binding site [chemical binding]; other site 395019012686 Q-loop/lid; other site 395019012687 ABC transporter signature motif; other site 395019012688 Walker B; other site 395019012689 D-loop; other site 395019012690 H-loop/switch region; other site 395019012691 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395019012692 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 395019012693 dimer interface [polypeptide binding]; other site 395019012694 conserved gate region; other site 395019012695 putative PBP binding loops; other site 395019012696 ABC-ATPase subunit interface; other site 395019012697 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395019012698 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 395019012699 substrate binding pocket [chemical binding]; other site 395019012700 membrane-bound complex binding site; other site 395019012701 S-formylglutathione hydrolase; Region: PLN02442 395019012702 Putative esterase; Region: Esterase; pfam00756 395019012703 OpgC protein; Region: OpgC_C; pfam10129 395019012704 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019012705 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019012706 trimer interface [polypeptide binding]; other site 395019012707 eyelet of channel; other site 395019012708 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019012709 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012710 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 395019012711 putative effector binding pocket; other site 395019012712 putative dimerization interface [polypeptide binding]; other site 395019012713 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 395019012714 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395019012715 active site 395019012716 catalytic tetrad [active] 395019012717 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 395019012718 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019012719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012720 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 395019012721 putative dimerization interface [polypeptide binding]; other site 395019012722 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395019012723 Peptidase family M23; Region: Peptidase_M23; pfam01551 395019012724 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 395019012725 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019012726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012727 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019012728 substrate binding pocket [chemical binding]; other site 395019012729 dimerization interface [polypeptide binding]; other site 395019012730 Predicted membrane protein [Function unknown]; Region: COG2261 395019012731 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395019012732 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395019012733 Walker A/P-loop; other site 395019012734 ATP binding site [chemical binding]; other site 395019012735 Q-loop/lid; other site 395019012736 ABC transporter signature motif; other site 395019012737 Walker B; other site 395019012738 D-loop; other site 395019012739 H-loop/switch region; other site 395019012740 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 395019012741 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395019012742 Walker A/P-loop; other site 395019012743 ATP binding site [chemical binding]; other site 395019012744 Q-loop/lid; other site 395019012745 ABC transporter signature motif; other site 395019012746 Walker B; other site 395019012747 D-loop; other site 395019012748 H-loop/switch region; other site 395019012749 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 395019012750 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 395019012751 dimer interface [polypeptide binding]; other site 395019012752 conserved gate region; other site 395019012753 putative PBP binding loops; other site 395019012754 ABC-ATPase subunit interface; other site 395019012755 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 395019012756 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 395019012757 dimer interface [polypeptide binding]; other site 395019012758 conserved gate region; other site 395019012759 putative PBP binding loops; other site 395019012760 ABC-ATPase subunit interface; other site 395019012761 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_7; cd08512 395019012762 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395019012763 Transposase domain (DUF772); Region: DUF772; pfam05598 395019012764 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395019012765 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019012766 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 395019012767 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395019012768 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395019012769 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_7; cd08512 395019012770 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 395019012771 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 395019012772 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 395019012773 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 395019012774 putative molybdopterin cofactor binding site [chemical binding]; other site 395019012775 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 395019012776 putative molybdopterin cofactor binding site; other site 395019012777 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019012778 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019012779 DNA-binding site [nucleotide binding]; DNA binding site 395019012780 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 395019012781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019012782 homodimer interface [polypeptide binding]; other site 395019012783 catalytic residue [active] 395019012784 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 395019012785 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395019012786 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019012787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012788 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 395019012789 dimerization interface [polypeptide binding]; other site 395019012790 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 395019012791 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395019012792 putative substrate translocation pore; other site 395019012793 Isochorismatase family; Region: Isochorismatase; pfam00857 395019012794 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 395019012795 catalytic triad [active] 395019012796 conserved cis-peptide bond; other site 395019012797 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019012798 MarR family; Region: MarR; pfam01047 395019012799 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 395019012800 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 395019012801 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395019012802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012803 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 395019012804 dimerization interface [polypeptide binding]; other site 395019012805 substrate binding pocket [chemical binding]; other site 395019012806 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 395019012807 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 395019012808 magnesium-transporting ATPase; Provisional; Region: PRK15122 395019012809 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 395019012810 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395019012811 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 395019012812 Soluble P-type ATPase [General function prediction only]; Region: COG4087 395019012813 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 395019012814 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 395019012815 active site 395019012816 catalytic triad [active] 395019012817 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 395019012818 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395019012819 substrate binding pocket [chemical binding]; other site 395019012820 membrane-bound complex binding site; other site 395019012821 hinge residues; other site 395019012822 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395019012823 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 395019012824 substrate binding pocket [chemical binding]; other site 395019012825 membrane-bound complex binding site; other site 395019012826 hinge residues; other site 395019012827 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 395019012828 dimer interface [polypeptide binding]; other site 395019012829 conserved gate region; other site 395019012830 putative PBP binding loops; other site 395019012831 ABC-ATPase subunit interface; other site 395019012832 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395019012833 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 395019012834 Walker A/P-loop; other site 395019012835 ATP binding site [chemical binding]; other site 395019012836 Q-loop/lid; other site 395019012837 ABC transporter signature motif; other site 395019012838 Walker B; other site 395019012839 D-loop; other site 395019012840 H-loop/switch region; other site 395019012841 amidase; Provisional; Region: PRK07056 395019012842 Amidase; Region: Amidase; cl11426 395019012843 Ectoine synthase; Region: Ectoine_synth; pfam06339 395019012844 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395019012845 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019012846 DNA-binding site [nucleotide binding]; DNA binding site 395019012847 FCD domain; Region: FCD; pfam07729 395019012848 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 395019012849 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 395019012850 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 395019012851 putative substrate translocation pore; other site 395019012852 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 395019012853 Transglycosylase; Region: Transgly; pfam00912 395019012854 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 395019012855 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 395019012856 Bacterial Ig-like domain; Region: Big_5; pfam13205 395019012857 MG2 domain; Region: A2M_N; pfam01835 395019012858 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 395019012859 Alpha-2-macroglobulin family; Region: A2M; pfam00207 395019012860 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 395019012861 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 395019012862 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395019012863 Cytochrome c; Region: Cytochrom_C; pfam00034 395019012864 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019012865 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019012866 Cytochrome c; Region: Cytochrom_C; pfam00034 395019012867 Predicted membrane protein [Function unknown]; Region: COG2259 395019012868 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019012869 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019012870 trimer interface [polypeptide binding]; other site 395019012871 eyelet of channel; other site 395019012872 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 395019012873 nudix motif; other site 395019012874 AAA domain; Region: AAA_17; pfam13207 395019012875 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 395019012876 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019012877 putative substrate translocation pore; other site 395019012878 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395019012879 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395019012880 metal binding site [ion binding]; metal-binding site 395019012881 putative dimer interface [polypeptide binding]; other site 395019012882 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 395019012883 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012884 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 395019012885 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 395019012886 Uncharacterized conserved protein [Function unknown]; Region: COG2308 395019012887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395019012888 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019012889 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019012890 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 395019012891 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 395019012892 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395019012893 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395019012894 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395019012895 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 395019012896 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395019012897 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395019012898 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 395019012899 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 395019012900 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 395019012901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 395019012902 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 395019012903 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 395019012904 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395019012905 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 395019012906 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395019012907 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395019012908 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019012909 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019012910 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 395019012911 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 395019012912 catalytic loop [active] 395019012913 iron binding site [ion binding]; other site 395019012914 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395019012915 Autotransporter beta-domain; Region: Autotransporter; pfam03797 395019012916 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 395019012917 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 395019012918 Cl- selectivity filter; other site 395019012919 Cl- binding residues [ion binding]; other site 395019012920 pore gating glutamate residue; other site 395019012921 dimer interface [polypeptide binding]; other site 395019012922 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 395019012923 FOG: CBS domain [General function prediction only]; Region: COG0517 395019012924 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 395019012925 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019012926 MarR family; Region: MarR_2; pfam12802 395019012927 MarR family; Region: MarR_2; cl17246 395019012928 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 395019012929 HPP family; Region: HPP; pfam04982 395019012930 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 395019012931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019012932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012933 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 395019012934 putative effector binding pocket; other site 395019012935 dimerization interface [polypeptide binding]; other site 395019012936 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 395019012937 D-galactonate transporter; Region: 2A0114; TIGR00893 395019012938 putative substrate translocation pore; other site 395019012939 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 395019012940 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 395019012941 putative ligand binding site [chemical binding]; other site 395019012942 NAD binding site [chemical binding]; other site 395019012943 catalytic site [active] 395019012944 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 395019012945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019012946 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 395019012947 putative dimerization interface [polypeptide binding]; other site 395019012948 putative substrate binding pocket [chemical binding]; other site 395019012949 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 395019012950 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 395019012951 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395019012952 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395019012953 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395019012954 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 395019012955 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 395019012956 active site 395019012957 AMP binding site [chemical binding]; other site 395019012958 homodimer interface [polypeptide binding]; other site 395019012959 acyl-activating enzyme (AAE) consensus motif; other site 395019012960 CoA binding site [chemical binding]; other site 395019012961 enoyl-CoA hydratase; Provisional; Region: PRK05995 395019012962 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 395019012963 substrate binding site [chemical binding]; other site 395019012964 oxyanion hole (OAH) forming residues; other site 395019012965 trimer interface [polypeptide binding]; other site 395019012966 MarC family integral membrane protein; Region: MarC; cl00919 395019012967 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 395019012968 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395019012969 active site 395019012970 catalytic tetrad [active] 395019012971 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 395019012972 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395019012973 putative NAD(P) binding site [chemical binding]; other site 395019012974 catalytic Zn binding site [ion binding]; other site 395019012975 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 395019012976 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 395019012977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 395019012978 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 395019012979 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019012980 Coenzyme A binding pocket [chemical binding]; other site 395019012981 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019012982 DNA-binding site [nucleotide binding]; DNA binding site 395019012983 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019012984 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 395019012985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019012986 homodimer interface [polypeptide binding]; other site 395019012987 catalytic residue [active] 395019012988 PAS domain; Region: PAS_9; pfam13426 395019012989 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 395019012990 dimer interface [polypeptide binding]; other site 395019012991 phosphorylation site [posttranslational modification] 395019012992 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 395019012993 ATP binding site [chemical binding]; other site 395019012994 Mg2+ binding site [ion binding]; other site 395019012995 G-X-G motif; other site 395019012996 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 395019012997 phosphorylation site [posttranslational modification] 395019012998 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 395019012999 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 395019013000 protein binding site [polypeptide binding]; other site 395019013001 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 395019013002 protein binding site [polypeptide binding]; other site 395019013003 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 395019013004 putative substrate translocation pore; other site 395019013005 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 395019013006 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395019013007 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019013008 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019013009 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 395019013010 putative uracil binding site [chemical binding]; other site 395019013011 putative active site [active] 395019013012 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395019013013 NMT1-like family; Region: NMT1_2; pfam13379 395019013014 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 395019013015 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 395019013016 active site 395019013017 phosphorylation site [posttranslational modification] 395019013018 intermolecular recognition site; other site 395019013019 dimerization interface [polypeptide binding]; other site 395019013020 ANTAR domain; Region: ANTAR; pfam03861 395019013021 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 395019013022 active site 395019013023 SAM binding site [chemical binding]; other site 395019013024 homodimer interface [polypeptide binding]; other site 395019013025 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 395019013026 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 395019013027 nitrite reductase subunit NirD; Provisional; Region: PRK14989 395019013028 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019013029 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019013030 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 395019013031 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 395019013032 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 395019013033 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 395019013034 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 395019013035 [4Fe-4S] binding site [ion binding]; other site 395019013036 molybdopterin cofactor binding site; other site 395019013037 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 395019013038 molybdopterin cofactor binding site; other site 395019013039 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 395019013040 Flavodoxin; Region: Flavodoxin_1; pfam00258 395019013041 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 395019013042 FAD binding pocket [chemical binding]; other site 395019013043 FAD binding motif [chemical binding]; other site 395019013044 catalytic residues [active] 395019013045 NAD binding pocket [chemical binding]; other site 395019013046 phosphate binding motif [ion binding]; other site 395019013047 beta-alpha-beta structure motif; other site 395019013048 Predicted integral membrane protein [Function unknown]; Region: COG0392 395019013049 Uncharacterized conserved protein [Function unknown]; Region: COG2898 395019013050 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 395019013051 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 395019013052 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 395019013053 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019013054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019013055 DNA-binding site [nucleotide binding]; DNA binding site 395019013056 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 395019013057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019013058 homodimer interface [polypeptide binding]; other site 395019013059 catalytic residue [active] 395019013060 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 395019013061 D-galactonate transporter; Region: 2A0114; TIGR00893 395019013062 putative substrate translocation pore; other site 395019013063 mannonate dehydratase; Provisional; Region: PRK03906 395019013064 mannonate dehydratase; Region: uxuA; TIGR00695 395019013065 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019013066 DNA-binding site [nucleotide binding]; DNA binding site 395019013067 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395019013068 FCD domain; Region: FCD; pfam07729 395019013069 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395019013070 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395019013071 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 395019013072 dimerization interface [polypeptide binding]; other site 395019013073 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019013074 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019013075 metal binding site [ion binding]; metal-binding site 395019013076 active site 395019013077 I-site; other site 395019013078 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019013079 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 395019013080 active site 395019013081 metal binding site [ion binding]; metal-binding site 395019013082 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 395019013083 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 395019013084 Int/Topo IB signature motif; other site 395019013085 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 395019013086 putative transporter; Provisional; Region: PRK10504 395019013087 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 395019013088 putative substrate translocation pore; other site 395019013089 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 395019013090 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 395019013091 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 395019013092 DNA-binding site [nucleotide binding]; DNA binding site 395019013093 RNA-binding motif; other site 395019013094 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 395019013095 rRNA binding site [nucleotide binding]; other site 395019013096 predicted 30S ribosome binding site; other site 395019013097 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 395019013098 putative substrate translocation pore; other site 395019013099 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 395019013100 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 395019013101 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 395019013102 Phage-related tail protein [Function unknown]; Region: COG5283 395019013103 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 395019013104 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 395019013105 N-terminal plug; other site 395019013106 ligand-binding site [chemical binding]; other site 395019013107 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 395019013108 S-adenosylmethionine binding site [chemical binding]; other site 395019013109 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 395019013110 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 395019013111 tetramer interface [polypeptide binding]; other site 395019013112 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019013113 catalytic residue [active] 395019013114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 395019013115 YheO-like PAS domain; Region: PAS_6; pfam08348 395019013116 HTH domain; Region: HTH_22; pfam13309 395019013117 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 395019013118 active site 395019013119 substrate-binding site [chemical binding]; other site 395019013120 metal-binding site [ion binding] 395019013121 GTP binding site [chemical binding]; other site 395019013122 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 395019013123 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 395019013124 FtsH Extracellular; Region: FtsH_ext; pfam06480 395019013125 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 395019013126 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 395019013127 Walker A motif; other site 395019013128 ATP binding site [chemical binding]; other site 395019013129 Walker B motif; other site 395019013130 arginine finger; other site 395019013131 Peptidase family M41; Region: Peptidase_M41; pfam01434 395019013132 OsmC-like protein; Region: OsmC; pfam02566 395019013133 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 395019013134 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 395019013135 active site 395019013136 homotetramer interface [polypeptide binding]; other site 395019013137 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 395019013138 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395019013139 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019013140 dimer interface [polypeptide binding]; other site 395019013141 putative CheW interface [polypeptide binding]; other site 395019013142 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 395019013143 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 395019013144 N-terminal plug; other site 395019013145 ligand-binding site [chemical binding]; other site 395019013146 BNR repeat-like domain; Region: BNR_2; pfam13088 395019013147 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395019013148 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 395019013149 substrate binding pocket [chemical binding]; other site 395019013150 membrane-bound complex binding site; other site 395019013151 hinge residues; other site 395019013152 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 395019013153 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 395019013154 conserved gate region; other site 395019013155 dimer interface [polypeptide binding]; other site 395019013156 putative PBP binding loops; other site 395019013157 ABC-ATPase subunit interface; other site 395019013158 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395019013159 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 395019013160 Walker A/P-loop; other site 395019013161 ATP binding site [chemical binding]; other site 395019013162 Q-loop/lid; other site 395019013163 ABC transporter signature motif; other site 395019013164 Walker B; other site 395019013165 D-loop; other site 395019013166 H-loop/switch region; other site 395019013167 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 395019013168 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 395019013169 active site 395019013170 non-prolyl cis peptide bond; other site 395019013171 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 395019013172 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 395019013173 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 395019013174 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395019013175 substrate binding pocket [chemical binding]; other site 395019013176 membrane-bound complex binding site; other site 395019013177 hinge residues; other site 395019013178 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019013179 Coenzyme A binding pocket [chemical binding]; other site 395019013180 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 395019013181 toxin interface [polypeptide binding]; other site 395019013182 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 395019013183 Zn binding site [ion binding]; other site 395019013184 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 395019013185 non-specific DNA binding site [nucleotide binding]; other site 395019013186 salt bridge; other site 395019013187 sequence-specific DNA binding site [nucleotide binding]; other site 395019013188 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 395019013189 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 395019013190 peptide binding site [polypeptide binding]; other site 395019013191 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 395019013192 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 395019013193 putative active site [active] 395019013194 Zn binding site [ion binding]; other site 395019013195 PAS domain; Region: PAS; smart00091 395019013196 PAS fold; Region: PAS_7; pfam12860 395019013197 putative active site [active] 395019013198 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019013199 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019013200 metal binding site [ion binding]; metal-binding site 395019013201 active site 395019013202 I-site; other site 395019013203 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395019013204 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019013205 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395019013206 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019013207 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 395019013208 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395019013209 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019013210 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019013211 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 395019013212 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019013213 ligand binding site [chemical binding]; other site 395019013214 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019013215 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019013216 trimer interface [polypeptide binding]; other site 395019013217 eyelet of channel; other site 395019013218 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 395019013219 active site 395019013220 catalytic residues [active] 395019013221 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 395019013222 putative dimerization interface [polypeptide binding]; other site 395019013223 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395019013224 putative ligand binding site [chemical binding]; other site 395019013225 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019013226 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019013227 xylose isomerase; Provisional; Region: PRK05474 395019013228 xylose isomerase; Region: xylose_isom_A; TIGR02630 395019013229 xylulokinase; Provisional; Region: PRK15027 395019013230 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 395019013231 N- and C-terminal domain interface [polypeptide binding]; other site 395019013232 active site 395019013233 MgATP binding site [chemical binding]; other site 395019013234 catalytic site [active] 395019013235 metal binding site [ion binding]; metal-binding site 395019013236 xylulose binding site [chemical binding]; other site 395019013237 homodimer interface [polypeptide binding]; other site 395019013238 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 395019013239 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 395019013240 putative ligand binding site [chemical binding]; other site 395019013241 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 395019013242 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 395019013243 Walker A/P-loop; other site 395019013244 ATP binding site [chemical binding]; other site 395019013245 Q-loop/lid; other site 395019013246 ABC transporter signature motif; other site 395019013247 Walker B; other site 395019013248 D-loop; other site 395019013249 H-loop/switch region; other site 395019013250 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 395019013251 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019013252 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019013253 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019013254 TM-ABC transporter signature motif; other site 395019013255 Protein of unknown function DUF72; Region: DUF72; pfam01904 395019013256 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019013257 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395019013258 tetramerization interface [polypeptide binding]; other site 395019013259 NAD(P) binding site [chemical binding]; other site 395019013260 catalytic residues [active] 395019013261 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019013262 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019013263 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 395019013264 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019013265 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395019013266 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395019013267 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019013268 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019013269 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 395019013270 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 395019013271 catalytic loop [active] 395019013272 iron binding site [ion binding]; other site 395019013273 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395019013274 Uncharacterized conserved protein [Function unknown]; Region: COG1359 395019013275 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 395019013276 Prostaglandin dehydrogenases; Region: PGDH; cd05288 395019013277 NAD(P) binding site [chemical binding]; other site 395019013278 substrate binding site [chemical binding]; other site 395019013279 dimer interface [polypeptide binding]; other site 395019013280 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019013281 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019013282 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 395019013283 Cation efflux family; Region: Cation_efflux; cl00316 395019013284 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 395019013285 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019013286 salt bridge; other site 395019013287 non-specific DNA binding site [nucleotide binding]; other site 395019013288 sequence-specific DNA binding site [nucleotide binding]; other site 395019013289 HipA N-terminal domain; Region: Couple_hipA; pfam13657 395019013290 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 395019013291 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395019013292 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395019013293 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 395019013294 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 395019013295 dimer interface [polypeptide binding]; other site 395019013296 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 395019013297 active site 395019013298 Fe binding site [ion binding]; other site 395019013299 shikimate transporter; Provisional; Region: PRK09952 395019013300 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 395019013301 putative substrate translocation pore; other site 395019013302 GT1, myb-like, SANT family; Region: GT1; cl17727 395019013303 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 395019013304 active site 395019013305 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 395019013306 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 395019013307 putative active site [active] 395019013308 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 395019013309 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 395019013310 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 395019013311 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 395019013312 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019013313 DEAD_2; Region: DEAD_2; pfam06733 395019013314 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 395019013315 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 395019013316 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 395019013317 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 395019013318 FOG: CBS domain [General function prediction only]; Region: COG0517 395019013319 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_9; cd04622 395019013320 PRC-barrel domain; Region: PRC; pfam05239 395019013321 Homeodomain-like domain; Region: HTH_23; pfam13384 395019013322 Winged helix-turn helix; Region: HTH_29; pfam13551 395019013323 Homeodomain-like domain; Region: HTH_32; pfam13565 395019013324 DDE superfamily endonuclease; Region: DDE_3; pfam13358 395019013325 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 395019013326 periplasmic protein; Provisional; Region: PRK10568 395019013327 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395019013328 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 395019013329 putative active site [active] 395019013330 heme pocket [chemical binding]; other site 395019013331 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 395019013332 dimer interface [polypeptide binding]; other site 395019013333 phosphorylation site [posttranslational modification] 395019013334 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 395019013335 ATP binding site [chemical binding]; other site 395019013336 Mg2+ binding site [ion binding]; other site 395019013337 G-X-G motif; other site 395019013338 Response regulator receiver domain; Region: Response_reg; pfam00072 395019013339 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 395019013340 active site 395019013341 phosphorylation site [posttranslational modification] 395019013342 intermolecular recognition site; other site 395019013343 dimerization interface [polypeptide binding]; other site 395019013344 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 395019013345 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 395019013346 Walker A motif; other site 395019013347 ATP binding site [chemical binding]; other site 395019013348 Walker B motif; other site 395019013349 arginine finger; other site 395019013350 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 395019013351 Cache domain; Region: Cache_1; pfam02743 395019013352 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 395019013353 dimerization interface [polypeptide binding]; other site 395019013354 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019013355 dimer interface [polypeptide binding]; other site 395019013356 putative CheW interface [polypeptide binding]; other site 395019013357 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 395019013358 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 395019013359 Ligand Binding Site [chemical binding]; other site 395019013360 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 395019013361 Ligand Binding Site [chemical binding]; other site 395019013362 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 395019013363 Spore germination protein; Region: Spore_permease; cl17796 395019013364 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 395019013365 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 395019013366 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 395019013367 active site residue [active] 395019013368 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 395019013369 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 395019013370 Ligand Binding Site [chemical binding]; other site 395019013371 PAS domain S-box; Region: sensory_box; TIGR00229 395019013372 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 395019013373 putative active site [active] 395019013374 heme pocket [chemical binding]; other site 395019013375 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 395019013376 Histidine kinase; Region: HisKA_3; pfam07730 395019013377 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 395019013378 ATP binding site [chemical binding]; other site 395019013379 Mg2+ binding site [ion binding]; other site 395019013380 G-X-G motif; other site 395019013381 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019013382 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 395019013383 active site 395019013384 phosphorylation site [posttranslational modification] 395019013385 intermolecular recognition site; other site 395019013386 dimerization interface [polypeptide binding]; other site 395019013387 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 395019013388 DNA binding residues [nucleotide binding] 395019013389 dimerization interface [polypeptide binding]; other site 395019013390 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 395019013391 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019013392 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 395019013393 Transglycosylase; Region: Transgly; pfam00912 395019013394 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 395019013395 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 395019013396 Proline racemase; Region: Pro_racemase; pfam05544 395019013397 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019013398 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395019013399 dimerization interface [polypeptide binding]; other site 395019013400 ligand binding site [chemical binding]; other site 395019013401 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395019013402 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019013403 DNA-binding site [nucleotide binding]; DNA binding site 395019013404 FCD domain; Region: FCD; pfam07729 395019013405 ornithine cyclodeaminase; Validated; Region: PRK07340 395019013406 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019013407 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 395019013408 active site 395019013409 phosphorylation site [posttranslational modification] 395019013410 intermolecular recognition site; other site 395019013411 dimerization interface [polypeptide binding]; other site 395019013412 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 395019013413 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 395019013414 ligand binding site [chemical binding]; other site 395019013415 flexible hinge region; other site 395019013416 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 395019013417 putative switch regulator; other site 395019013418 non-specific DNA interactions [nucleotide binding]; other site 395019013419 DNA binding site [nucleotide binding] 395019013420 sequence specific DNA binding site [nucleotide binding]; other site 395019013421 putative cAMP binding site [chemical binding]; other site 395019013422 Protein of unknown function, DUF488; Region: DUF488; cl01246 395019013423 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 395019013424 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 395019013425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019013426 homodimer interface [polypeptide binding]; other site 395019013427 catalytic residue [active] 395019013428 aromatic amino acid transporter; Provisional; Region: PRK10238 395019013429 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019013430 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 395019013431 putative DNA binding site [nucleotide binding]; other site 395019013432 putative Zn2+ binding site [ion binding]; other site 395019013433 AsnC family; Region: AsnC_trans_reg; pfam01037 395019013434 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 395019013435 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 395019013436 EamA-like transporter family; Region: EamA; pfam00892 395019013437 Phosphoesterase family; Region: Phosphoesterase; pfam04185 395019013438 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 395019013439 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395019013440 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 395019013441 S-adenosylmethionine binding site [chemical binding]; other site 395019013442 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395019013443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019013444 DNA-binding site [nucleotide binding]; DNA binding site 395019013445 FCD domain; Region: FCD; pfam07729 395019013446 short chain dehydrogenase; Provisional; Region: PRK12829 395019013447 classical (c) SDRs; Region: SDR_c; cd05233 395019013448 NAD(P) binding site [chemical binding]; other site 395019013449 active site 395019013450 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 395019013451 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 395019013452 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 395019013453 putative substrate translocation pore; other site 395019013454 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 395019013455 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 395019013456 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 395019013457 putative ion selectivity filter; other site 395019013458 putative pore gating glutamate residue; other site 395019013459 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 395019013460 cytosine deaminase; Provisional; Region: PRK09230 395019013461 active site 395019013462 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_14; cd08355 395019013463 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019013464 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019013465 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019013466 trimer interface [polypeptide binding]; other site 395019013467 eyelet of channel; other site 395019013468 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019013469 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019013470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019013471 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 395019013472 putative effector binding pocket; other site 395019013473 dimerization interface [polypeptide binding]; other site 395019013474 Fusaric acid resistance protein family; Region: FUSC; pfam04632 395019013475 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 395019013476 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 395019013477 homodimer interface [polypeptide binding]; other site 395019013478 homotetramer interface [polypeptide binding]; other site 395019013479 active site pocket [active] 395019013480 cleavage site 395019013481 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 395019013482 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 395019013483 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 395019013484 DNA binding residues [nucleotide binding] 395019013485 dimerization interface [polypeptide binding]; other site 395019013486 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395019013487 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 395019013488 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 395019013489 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 395019013490 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 395019013491 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 395019013492 tetrameric interface [polypeptide binding]; other site 395019013493 NAD binding site [chemical binding]; other site 395019013494 catalytic residues [active] 395019013495 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 395019013496 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 395019013497 inhibitor-cofactor binding pocket; inhibition site 395019013498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019013499 catalytic residue [active] 395019013500 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019013501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019013502 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 395019013503 dimerization interface [polypeptide binding]; other site 395019013504 H+ Antiporter protein; Region: 2A0121; TIGR00900 395019013505 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 395019013506 putative substrate translocation pore; other site 395019013507 MarR family; Region: MarR_2; cl17246 395019013508 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019013509 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 395019013510 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395019013511 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395019013512 conserved cys residue [active] 395019013513 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019013514 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 395019013515 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019013516 NAD(P) binding site [chemical binding]; other site 395019013517 active site 395019013518 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 395019013519 putative substrate translocation pore; other site 395019013520 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 395019013521 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 395019013522 putative substrate translocation pore; other site 395019013523 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395019013524 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019013525 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019013526 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019013527 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019013528 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 395019013529 putative DNA binding site [nucleotide binding]; other site 395019013530 putative Zn2+ binding site [ion binding]; other site 395019013531 AsnC family; Region: AsnC_trans_reg; pfam01037 395019013532 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395019013533 Predicted membrane protein [Function unknown]; Region: COG1238 395019013534 Cache domain; Region: Cache_1; pfam02743 395019013535 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395019013536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019013537 dimer interface [polypeptide binding]; other site 395019013538 putative CheW interface [polypeptide binding]; other site 395019013539 acyl-CoA synthetase; Validated; Region: PRK08162 395019013540 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 395019013541 acyl-activating enzyme (AAE) consensus motif; other site 395019013542 putative active site [active] 395019013543 AMP binding site [chemical binding]; other site 395019013544 putative CoA binding site [chemical binding]; other site 395019013545 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395019013546 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 395019013547 ligand binding site [chemical binding]; other site 395019013548 flexible hinge region; other site 395019013549 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 395019013550 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395019013551 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395019013552 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019013553 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019013554 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019013555 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 395019013556 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 395019013557 active site 395019013558 phosphorylation site [posttranslational modification] 395019013559 intermolecular recognition site; other site 395019013560 dimerization interface [polypeptide binding]; other site 395019013561 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 395019013562 DNA binding site [nucleotide binding] 395019013563 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 395019013564 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 395019013565 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 395019013566 dimer interface [polypeptide binding]; other site 395019013567 phosphorylation site [posttranslational modification] 395019013568 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 395019013569 ATP binding site [chemical binding]; other site 395019013570 Mg2+ binding site [ion binding]; other site 395019013571 G-X-G motif; other site 395019013572 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395019013573 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 395019013574 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019013575 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019013576 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019013577 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395019013578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019013579 NAD(P) binding site [chemical binding]; other site 395019013580 active site 395019013581 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 395019013582 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395019013583 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 395019013584 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 395019013585 active site 395019013586 FMN binding site [chemical binding]; other site 395019013587 substrate binding site [chemical binding]; other site 395019013588 homotetramer interface [polypeptide binding]; other site 395019013589 catalytic residue [active] 395019013590 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 395019013591 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 395019013592 potential catalytic triad [active] 395019013593 conserved cys residue [active] 395019013594 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019013595 DNA-binding site [nucleotide binding]; DNA binding site 395019013596 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019013597 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 395019013598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019013599 homodimer interface [polypeptide binding]; other site 395019013600 catalytic residue [active] 395019013601 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 395019013602 Uncharacterized conserved protein [Function unknown]; Region: COG2128 395019013603 Cupin domain; Region: Cupin_2; pfam07883 395019013604 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019013605 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019013606 trimer interface [polypeptide binding]; other site 395019013607 eyelet of channel; other site 395019013608 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 395019013609 active site lid residues [active] 395019013610 substrate binding pocket [chemical binding]; other site 395019013611 catalytic residues [active] 395019013612 substrate-Mg2+ binding site; other site 395019013613 aspartate-rich region 1; other site 395019013614 aspartate-rich region 2; other site 395019013615 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 395019013616 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 395019013617 putative active site [active] 395019013618 catalytic site [active] 395019013619 putative metal binding site [ion binding]; other site 395019013620 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 395019013621 active site residue [active] 395019013622 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 395019013623 active site residue [active] 395019013624 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 395019013625 active site residue [active] 395019013626 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 395019013627 active site residue [active] 395019013628 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 395019013629 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019013630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019013631 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 395019013632 dimerization interface [polypeptide binding]; other site 395019013633 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395019013634 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 395019013635 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 395019013636 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 395019013637 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 395019013638 dimer interface [polypeptide binding]; other site 395019013639 active site 395019013640 non-prolyl cis peptide bond; other site 395019013641 insertion regions; other site 395019013642 hypothetical protein; Provisional; Region: PRK06208 395019013643 active site 395019013644 intersubunit interface [polypeptide binding]; other site 395019013645 Zn2+ binding site [ion binding]; other site 395019013646 NMT1-like family; Region: NMT1_2; pfam13379 395019013647 NMT1/THI5 like; Region: NMT1; pfam09084 395019013648 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395019013649 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 395019013650 dimer interface [polypeptide binding]; other site 395019013651 conserved gate region; other site 395019013652 putative PBP binding loops; other site 395019013653 ABC-ATPase subunit interface; other site 395019013654 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395019013655 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395019013656 Walker A/P-loop; other site 395019013657 ATP binding site [chemical binding]; other site 395019013658 Q-loop/lid; other site 395019013659 ABC transporter signature motif; other site 395019013660 Walker B; other site 395019013661 D-loop; other site 395019013662 H-loop/switch region; other site 395019013663 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 395019013664 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395019013665 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 395019013666 membrane-bound complex binding site; other site 395019013667 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 395019013668 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 395019013669 MOSC domain; Region: MOSC; pfam03473 395019013670 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 395019013671 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 395019013672 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 395019013673 dimer interface [polypeptide binding]; other site 395019013674 phosphorylation site [posttranslational modification] 395019013675 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 395019013676 ATP binding site [chemical binding]; other site 395019013677 Mg2+ binding site [ion binding]; other site 395019013678 G-X-G motif; other site 395019013679 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 395019013680 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 395019013681 active site 395019013682 phosphorylation site [posttranslational modification] 395019013683 intermolecular recognition site; other site 395019013684 dimerization interface [polypeptide binding]; other site 395019013685 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 395019013686 DNA binding site [nucleotide binding] 395019013687 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395019013688 NAD(P) binding site [chemical binding]; other site 395019013689 catalytic residues [active] 395019013690 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 395019013691 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 395019013692 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 395019013693 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 395019013694 Cytochrome c; Region: Cytochrom_C; pfam00034 395019013695 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 395019013696 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395019013697 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395019013698 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 395019013699 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019013700 Helix-turn-helix domain; Region: HTH_18; pfam12833 395019013701 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019013702 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395019013703 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 395019013704 active site 395019013705 phosphorylation site [posttranslational modification] 395019013706 intermolecular recognition site; other site 395019013707 dimerization interface [polypeptide binding]; other site 395019013708 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 395019013709 DNA binding site [nucleotide binding] 395019013710 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019013711 HAMP domain; Region: HAMP; pfam00672 395019013712 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 395019013713 dimer interface [polypeptide binding]; other site 395019013714 phosphorylation site [posttranslational modification] 395019013715 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 395019013716 Mg2+ binding site [ion binding]; other site 395019013717 G-X-G motif; other site 395019013718 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395019013719 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019013720 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019013721 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 395019013722 Protein export membrane protein; Region: SecD_SecF; cl14618 395019013723 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 395019013724 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395019013725 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 395019013726 active site 395019013727 phosphorylation site [posttranslational modification] 395019013728 intermolecular recognition site; other site 395019013729 dimerization interface [polypeptide binding]; other site 395019013730 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 395019013731 DNA binding site [nucleotide binding] 395019013732 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 395019013733 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395019013734 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 395019013735 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 395019013736 dimer interface [polypeptide binding]; other site 395019013737 conserved gate region; other site 395019013738 ABC-ATPase subunit interface; other site 395019013739 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 395019013740 dimer interface [polypeptide binding]; other site 395019013741 conserved gate region; other site 395019013742 putative PBP binding loops; other site 395019013743 ABC-ATPase subunit interface; other site 395019013744 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 395019013745 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395019013746 Walker A/P-loop; other site 395019013747 ATP binding site [chemical binding]; other site 395019013748 Q-loop/lid; other site 395019013749 ABC transporter signature motif; other site 395019013750 Walker B; other site 395019013751 D-loop; other site 395019013752 H-loop/switch region; other site 395019013753 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019013754 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019013755 eyelet of channel; other site 395019013756 trimer interface [polypeptide binding]; other site 395019013757 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395019013758 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395019013759 NAD(P) binding site [chemical binding]; other site 395019013760 Helix-turn-helix domain; Region: HTH_18; pfam12833 395019013761 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019013762 DNA binding domain, excisionase family; Region: excise; TIGR01764 395019013763 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 395019013764 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395019013765 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 395019013766 putative substrate binding pocket [chemical binding]; other site 395019013767 trimer interface [polypeptide binding]; other site 395019013768 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 395019013769 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 395019013770 putative active site [active] 395019013771 putative metal binding site [ion binding]; other site 395019013772 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 395019013773 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 395019013774 NAD binding site [chemical binding]; other site 395019013775 catalytic residues [active] 395019013776 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 395019013777 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395019013778 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395019013779 MarR family; Region: MarR_2; cl17246 395019013780 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019013781 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395019013782 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019013783 NAD(P) binding site [chemical binding]; other site 395019013784 active site 395019013785 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 395019013786 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 395019013787 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 395019013788 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 395019013789 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 395019013790 putative cation:proton antiport protein; Provisional; Region: PRK10669 395019013791 TrkA-N domain; Region: TrkA_N; pfam02254 395019013792 Cytochrome c; Region: Cytochrom_C; pfam00034 395019013793 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019013794 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019013795 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 395019013796 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 395019013797 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395019013798 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 395019013799 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 395019013800 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 395019013801 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 395019013802 hexamer interface [polypeptide binding]; other site 395019013803 ligand binding site [chemical binding]; other site 395019013804 putative active site [active] 395019013805 NAD(P) binding site [chemical binding]; other site 395019013806 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 395019013807 hypothetical protein; Provisional; Region: PRK08609 395019013808 active site 395019013809 primer binding site [nucleotide binding]; other site 395019013810 NTP binding site [chemical binding]; other site 395019013811 metal binding triad [ion binding]; metal-binding site 395019013812 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 395019013813 active site 395019013814 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 395019013815 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 395019013816 Bacterial sugar transferase; Region: Bac_transf; pfam02397 395019013817 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395019013818 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 395019013819 non-specific DNA interactions [nucleotide binding]; other site 395019013820 DNA binding site [nucleotide binding] 395019013821 sequence specific DNA binding site [nucleotide binding]; other site 395019013822 putative cAMP binding site [chemical binding]; other site 395019013823 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395019013824 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 395019013825 ligand binding site [chemical binding]; other site 395019013826 flexible hinge region; other site 395019013827 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 395019013828 acyl carrier protein; Provisional; Region: PRK07081 395019013829 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395019013830 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 395019013831 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395019013832 active site 395019013833 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 395019013834 dimer interface [polypeptide binding]; other site 395019013835 motif 1; other site 395019013836 active site 395019013837 motif 2; other site 395019013838 motif 3; other site 395019013839 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 395019013840 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 395019013841 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395019013842 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 395019013843 Walker A motif; other site 395019013844 ATP binding site [chemical binding]; other site 395019013845 Walker B motif; other site 395019013846 arginine finger; other site 395019013847 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395019013848 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 395019013849 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 395019013850 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 395019013851 Substrate binding site; other site 395019013852 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 395019013853 Right handed beta helix region; Region: Beta_helix; pfam13229 395019013854 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 395019013855 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395019013856 putative ADP-binding pocket [chemical binding]; other site 395019013857 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 395019013858 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 395019013859 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 395019013860 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 395019013861 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395019013862 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 395019013863 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 395019013864 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 395019013865 tyrosine kinase; Provisional; Region: PRK11519 395019013866 Chain length determinant protein; Region: Wzz; cl15801 395019013867 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 395019013868 Chain length determinant protein; Region: Wzz; cl15801 395019013869 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 395019013870 polysaccharide export protein Wza; Provisional; Region: PRK15078 395019013871 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395019013872 SLBB domain; Region: SLBB; pfam10531 395019013873 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 395019013874 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 395019013875 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 395019013876 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 395019013877 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 395019013878 motif II; other site 395019013879 Uncharacterized conserved protein [Function unknown]; Region: COG1739 395019013880 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 395019013881 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 395019013882 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 395019013883 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 395019013884 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395019013885 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 395019013886 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 395019013887 ATP binding site [chemical binding]; other site 395019013888 putative Mg++ binding site [ion binding]; other site 395019013889 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 395019013890 nucleotide binding region [chemical binding]; other site 395019013891 ATP-binding site [chemical binding]; other site 395019013892 DEAD/H associated; Region: DEAD_assoc; pfam08494 395019013893 putative transporter; Provisional; Region: PRK11021 395019013894 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 395019013895 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019013896 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 395019013897 dimerization interface [polypeptide binding]; other site 395019013898 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 395019013899 heterodimer interface [polypeptide binding]; other site 395019013900 multimer interface [polypeptide binding]; other site 395019013901 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 395019013902 active site 395019013903 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 395019013904 heterodimer interface [polypeptide binding]; other site 395019013905 active site 395019013906 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 395019013907 SxDxEG motif; other site 395019013908 active site 395019013909 metal binding site [ion binding]; metal-binding site 395019013910 homopentamer interface [polypeptide binding]; other site 395019013911 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 395019013912 homodimer interface [polypeptide binding]; other site 395019013913 homotetramer interface [polypeptide binding]; other site 395019013914 active site pocket [active] 395019013915 cleavage site 395019013916 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 395019013917 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 395019013918 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 395019013919 dimer interface [polypeptide binding]; other site 395019013920 conserved gate region; other site 395019013921 putative PBP binding loops; other site 395019013922 ABC-ATPase subunit interface; other site 395019013923 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 395019013924 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 395019013925 dimer interface [polypeptide binding]; other site 395019013926 conserved gate region; other site 395019013927 putative PBP binding loops; other site 395019013928 ABC-ATPase subunit interface; other site 395019013929 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 395019013930 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 395019013931 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 395019013932 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395019013933 Walker A/P-loop; other site 395019013934 ATP binding site [chemical binding]; other site 395019013935 Q-loop/lid; other site 395019013936 ABC transporter signature motif; other site 395019013937 Walker B; other site 395019013938 D-loop; other site 395019013939 H-loop/switch region; other site 395019013940 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 395019013941 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 395019013942 Walker A/P-loop; other site 395019013943 ATP binding site [chemical binding]; other site 395019013944 Q-loop/lid; other site 395019013945 ABC transporter signature motif; other site 395019013946 Walker B; other site 395019013947 D-loop; other site 395019013948 H-loop/switch region; other site 395019013949 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 395019013950 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cd04512 395019013951 active site 395019013952 dimer interface [polypeptide binding]; other site 395019013953 catalytic nucleophile [active] 395019013954 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 395019013955 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395019013956 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 395019013957 putative active site [active] 395019013958 BCCT family transporter; Region: BCCT; pfam02028 395019013959 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 395019013960 Methyltransferase domain; Region: Methyltransf_31; pfam13847 395019013961 S-adenosylmethionine binding site [chemical binding]; other site 395019013962 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 395019013963 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395019013964 active site 395019013965 metal binding site [ion binding]; metal-binding site 395019013966 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 395019013967 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019013968 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019013969 DNA-binding site [nucleotide binding]; DNA binding site 395019013970 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 395019013971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019013972 homodimer interface [polypeptide binding]; other site 395019013973 catalytic residue [active] 395019013974 benzoate transport; Region: 2A0115; TIGR00895 395019013975 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 395019013976 putative substrate translocation pore; other site 395019013977 salicylate hydroxylase; Provisional; Region: PRK08163 395019013978 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395019013979 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 395019013980 maleylacetoacetate isomerase; Region: maiA; TIGR01262 395019013981 C-terminal domain interface [polypeptide binding]; other site 395019013982 GSH binding site (G-site) [chemical binding]; other site 395019013983 putative dimer interface [polypeptide binding]; other site 395019013984 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 395019013985 dimer interface [polypeptide binding]; other site 395019013986 N-terminal domain interface [polypeptide binding]; other site 395019013987 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 395019013988 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 395019013989 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395019013990 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 395019013991 Cupin domain; Region: Cupin_2; pfam07883 395019013992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019013993 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 395019013994 dimerization interface [polypeptide binding]; other site 395019013995 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 395019013996 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 395019013997 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019013998 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395019013999 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 395019014000 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 395019014001 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 395019014002 Spore germination protein; Region: Spore_permease; cl17796 395019014003 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 395019014004 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 395019014005 dimer interface [polypeptide binding]; other site 395019014006 NADP binding site [chemical binding]; other site 395019014007 catalytic residues [active] 395019014008 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 395019014009 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 395019014010 HTH-like domain; Region: HTH_21; pfam13276 395019014011 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395019014012 Integrase core domain; Region: rve; pfam00665 395019014013 Integrase core domain; Region: rve_2; pfam13333 395019014014 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019014015 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019014016 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019014017 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 395019014018 Bacterial SH3 domain; Region: SH3_3; pfam08239 395019014019 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 395019014020 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395019014021 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 395019014022 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019014023 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 395019014024 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 395019014025 DNA binding residues [nucleotide binding] 395019014026 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 395019014027 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 395019014028 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 395019014029 DNA binding residues [nucleotide binding] 395019014030 putative dimer interface [polypeptide binding]; other site 395019014031 putative metal binding residues [ion binding]; other site 395019014032 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 395019014033 MarR family; Region: MarR_2; cl17246 395019014034 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019014035 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 395019014036 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019014037 putative substrate translocation pore; other site 395019014038 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 395019014039 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 395019014040 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 395019014041 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 395019014042 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 395019014043 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 395019014044 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 395019014045 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 395019014046 active site 395019014047 metal-binding site 395019014048 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 395019014049 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 395019014050 tetramer interface [polypeptide binding]; other site 395019014051 active site 395019014052 Mg2+/Mn2+ binding site [ion binding]; other site 395019014053 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 395019014054 active site 395019014055 metal-binding site 395019014056 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395019014057 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 395019014058 PYR/PP interface [polypeptide binding]; other site 395019014059 dimer interface [polypeptide binding]; other site 395019014060 TPP binding site [chemical binding]; other site 395019014061 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 395019014062 TPP-binding site [chemical binding]; other site 395019014063 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 395019014064 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019014065 catalytic residue [active] 395019014066 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 395019014067 TAP-like protein; Region: Abhydrolase_4; pfam08386 395019014068 Protein of unknown function (DUF1120); Region: DUF1120; pfam06551 395019014069 putative fimbrial chaperone protein; Provisional; Region: PRK09918 395019014070 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 395019014071 hypothetical protein; Provisional; Region: PRK15301 395019014072 putative fimbrial outer membrane usher protein; Provisional; Region: PRK15304 395019014073 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 395019014074 PapC C-terminal domain; Region: PapC_C; pfam13953 395019014075 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 395019014076 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 395019014077 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 395019014078 putative active site [active] 395019014079 putative metal binding site [ion binding]; other site 395019014080 N-glycosyltransferase; Provisional; Region: PRK11204 395019014081 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 395019014082 DXD motif; other site 395019014083 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 395019014084 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 395019014085 glutaminase active site [active] 395019014086 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 395019014087 dimer interface [polypeptide binding]; other site 395019014088 active site 395019014089 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 395019014090 dimer interface [polypeptide binding]; other site 395019014091 active site 395019014092 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 395019014093 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019014094 Cytochrome c; Region: Cytochrom_C; pfam00034 395019014095 allantoate amidohydrolase; Reviewed; Region: PRK12891 395019014096 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 395019014097 active site 395019014098 metal binding site [ion binding]; metal-binding site 395019014099 dimer interface [polypeptide binding]; other site 395019014100 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 395019014101 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019014102 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395019014103 dimerization interface [polypeptide binding]; other site 395019014104 ligand binding site [chemical binding]; other site 395019014105 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019014106 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019014107 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019014108 dimerization interface [polypeptide binding]; other site 395019014109 substrate binding pocket [chemical binding]; other site 395019014110 peroxiredoxin; Region: AhpC; TIGR03137 395019014111 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 395019014112 dimer interface [polypeptide binding]; other site 395019014113 decamer (pentamer of dimers) interface [polypeptide binding]; other site 395019014114 catalytic triad [active] 395019014115 peroxidatic and resolving cysteines [active] 395019014116 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 395019014117 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 395019014118 catalytic residue [active] 395019014119 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 395019014120 catalytic residues [active] 395019014121 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019014122 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019014123 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 395019014124 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 395019014125 hypothetical protein; Provisional; Region: PRK07483 395019014126 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 395019014127 inhibitor-cofactor binding pocket; inhibition site 395019014128 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019014129 catalytic residue [active] 395019014130 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 395019014131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019014132 Walker B; other site 395019014133 D-loop; other site 395019014134 H-loop/switch region; other site 395019014135 MAPEG family; Region: MAPEG; cl09190 395019014136 alanine racemase; Reviewed; Region: PRK13340 395019014137 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 395019014138 active site 395019014139 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 395019014140 substrate binding site [chemical binding]; other site 395019014141 catalytic residues [active] 395019014142 dimer interface [polypeptide binding]; other site 395019014143 enoyl-CoA hydratase; Validated; Region: PRK08139 395019014144 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 395019014145 substrate binding site [chemical binding]; other site 395019014146 oxyanion hole (OAH) forming residues; other site 395019014147 trimer interface [polypeptide binding]; other site 395019014148 Response regulator receiver domain; Region: Response_reg; pfam00072 395019014149 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 395019014150 active site 395019014151 phosphorylation site [posttranslational modification] 395019014152 intermolecular recognition site; other site 395019014153 dimerization interface [polypeptide binding]; other site 395019014154 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 395019014155 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395019014156 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395019014157 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 395019014158 dimerization interface [polypeptide binding]; other site 395019014159 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395019014160 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 395019014161 putative binding surface; other site 395019014162 active site 395019014163 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 395019014164 ATP binding site [chemical binding]; other site 395019014165 Mg2+ binding site [ion binding]; other site 395019014166 G-X-G motif; other site 395019014167 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 395019014168 putative hydrolase; Provisional; Region: PRK11460 395019014169 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 395019014170 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 395019014171 NAD(P) binding site [chemical binding]; other site 395019014172 catalytic residues [active] 395019014173 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019014174 Coenzyme A binding pocket [chemical binding]; other site 395019014175 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019014176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019014177 DNA-binding site [nucleotide binding]; DNA binding site 395019014178 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 395019014179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019014180 homodimer interface [polypeptide binding]; other site 395019014181 catalytic residue [active] 395019014182 SnoaL-like domain; Region: SnoaL_2; pfam12680 395019014183 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 395019014184 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395019014185 PYR/PP interface [polypeptide binding]; other site 395019014186 dimer interface [polypeptide binding]; other site 395019014187 TPP binding site [chemical binding]; other site 395019014188 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395019014189 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 395019014190 TPP-binding site; other site 395019014191 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 395019014192 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 395019014193 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 395019014194 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 395019014195 metal ion-dependent adhesion site (MIDAS); other site 395019014196 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 395019014197 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 395019014198 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 395019014199 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019014200 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 395019014201 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019014202 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 395019014203 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 395019014204 4Fe-4S binding domain; Region: Fer4; pfam00037 395019014205 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 395019014206 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 395019014207 molybdopterin cofactor binding site; other site 395019014208 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 395019014209 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 395019014210 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_2; cd02783 395019014211 putative molybdopterin cofactor binding site; other site 395019014212 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 395019014213 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395019014214 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019014215 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019014216 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 395019014217 putative substrate translocation pore; other site 395019014218 choline dehydrogenase; Validated; Region: PRK02106 395019014219 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019014220 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395019014221 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019014222 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 395019014223 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019014224 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 395019014225 Predicted membrane protein [Function unknown]; Region: COG3817 395019014226 Protein of unknown function (DUF979); Region: DUF979; pfam06166 395019014227 Protein of unknown function (DUF969); Region: DUF969; pfam06149 395019014228 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 395019014229 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 395019014230 phosphorylation site [posttranslational modification] 395019014231 intermolecular recognition site; other site 395019014232 CheB methylesterase; Region: CheB_methylest; pfam01339 395019014233 Response regulator receiver domain; Region: Response_reg; pfam00072 395019014234 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 395019014235 active site 395019014236 phosphorylation site [posttranslational modification] 395019014237 intermolecular recognition site; other site 395019014238 dimerization interface [polypeptide binding]; other site 395019014239 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019014240 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019014241 metal binding site [ion binding]; metal-binding site 395019014242 active site 395019014243 I-site; other site 395019014244 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 395019014245 GAF domain; Region: GAF; pfam01590 395019014246 PAS domain S-box; Region: sensory_box; TIGR00229 395019014247 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 395019014248 putative active site [active] 395019014249 heme pocket [chemical binding]; other site 395019014250 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019014251 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019014252 metal binding site [ion binding]; metal-binding site 395019014253 active site 395019014254 I-site; other site 395019014255 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 395019014256 short chain dehydrogenase; Provisional; Region: PRK06180 395019014257 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395019014258 NADP binding site [chemical binding]; other site 395019014259 active site 395019014260 steroid binding site; other site 395019014261 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 395019014262 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019014263 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019014264 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019014265 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 395019014266 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 395019014267 motif II; other site 395019014268 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019014269 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019014270 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 395019014271 dimerization interface [polypeptide binding]; other site 395019014272 shikimate transporter; Provisional; Region: PRK09952 395019014273 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 395019014274 putative substrate translocation pore; other site 395019014275 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 395019014276 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 395019014277 tetrameric interface [polypeptide binding]; other site 395019014278 NAD binding site [chemical binding]; other site 395019014279 catalytic residues [active] 395019014280 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395019014281 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 395019014282 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019014283 Cytochrome c; Region: Cytochrom_C; pfam00034 395019014284 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 395019014285 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 395019014286 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 395019014287 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395019014288 FAD binding domain; Region: FAD_binding_3; pfam01494 395019014289 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 395019014290 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019014291 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395019014292 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 395019014293 Isochorismatase family; Region: Isochorismatase; pfam00857 395019014294 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 395019014295 catalytic triad [active] 395019014296 conserved cis-peptide bond; other site 395019014297 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 395019014298 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019014299 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 395019014300 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019014301 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 395019014302 MarR family; Region: MarR_2; cl17246 395019014303 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395019014304 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 395019014305 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 395019014306 putative substrate translocation pore; other site 395019014307 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 395019014308 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 395019014309 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 395019014310 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019014311 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019014312 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 395019014313 putative substrate binding pocket [chemical binding]; other site 395019014314 putative dimerization interface [polypeptide binding]; other site 395019014315 Predicted permeases [General function prediction only]; Region: COG0679 395019014316 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 395019014317 substrate binding pocket [chemical binding]; other site 395019014318 membrane-bound complex binding site; other site 395019014319 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 395019014320 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395019014321 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 395019014322 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395019014323 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 395019014324 ABC-ATPase subunit interface; other site 395019014325 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395019014326 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 395019014327 dimer interface [polypeptide binding]; other site 395019014328 conserved gate region; other site 395019014329 putative PBP binding loops; other site 395019014330 ABC-ATPase subunit interface; other site 395019014331 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395019014332 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395019014333 Walker A/P-loop; other site 395019014334 ATP binding site [chemical binding]; other site 395019014335 Q-loop/lid; other site 395019014336 ABC transporter signature motif; other site 395019014337 Walker B; other site 395019014338 D-loop; other site 395019014339 H-loop/switch region; other site 395019014340 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 395019014341 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 395019014342 active site 395019014343 iron coordination sites [ion binding]; other site 395019014344 substrate binding pocket [chemical binding]; other site 395019014345 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 395019014346 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 395019014347 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 395019014348 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 395019014349 peptide binding site [polypeptide binding]; other site 395019014350 Domain of unknown function (DUF427); Region: DUF427; pfam04248 395019014351 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395019014352 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 395019014353 substrate binding pocket [chemical binding]; other site 395019014354 membrane-bound complex binding site; other site 395019014355 hinge residues; other site 395019014356 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 395019014357 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019014358 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 395019014359 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395019014360 putative active site [active] 395019014361 metal binding site [ion binding]; metal-binding site 395019014362 Uncharacterized conserved protein [Function unknown]; Region: COG1359 395019014363 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 395019014364 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 395019014365 FAD binding domain; Region: FAD_binding_4; pfam01565 395019014366 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 395019014367 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395019014368 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 395019014369 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 395019014370 nucleotide binding site [chemical binding]; other site 395019014371 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 395019014372 putative substrate translocation pore; other site 395019014373 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019014374 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 395019014375 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 395019014376 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 395019014377 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395019014378 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 395019014379 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395019014380 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395019014381 DNA binding site [nucleotide binding] 395019014382 domain linker motif; other site 395019014383 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 395019014384 putative dimerization interface [polypeptide binding]; other site 395019014385 putative ligand binding site [chemical binding]; other site 395019014386 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 395019014387 D-galactonate transporter; Region: 2A0114; TIGR00893 395019014388 putative substrate translocation pore; other site 395019014389 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 395019014390 homotrimer interaction site [polypeptide binding]; other site 395019014391 putative active site [active] 395019014392 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019014393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019014394 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019014395 dimerization interface [polypeptide binding]; other site 395019014396 substrate binding pocket [chemical binding]; other site 395019014397 Protein of unknown function DUF72; Region: DUF72; pfam01904 395019014398 DEAD-like helicases superfamily; Region: DEXDc; smart00487 395019014399 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 395019014400 ATP binding site [chemical binding]; other site 395019014401 putative Mg++ binding site [ion binding]; other site 395019014402 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 395019014403 nucleotide binding region [chemical binding]; other site 395019014404 ATP-binding site [chemical binding]; other site 395019014405 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 395019014406 nucleophile elbow; other site 395019014407 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 395019014408 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 395019014409 G1 box; other site 395019014410 putative GEF interaction site [polypeptide binding]; other site 395019014411 GTP/Mg2+ binding site [chemical binding]; other site 395019014412 Switch I region; other site 395019014413 G2 box; other site 395019014414 G3 box; other site 395019014415 Switch II region; other site 395019014416 G4 box; other site 395019014417 G5 box; other site 395019014418 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 395019014419 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 395019014420 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 395019014421 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 395019014422 selenocysteine synthase; Provisional; Region: PRK04311 395019014423 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 395019014424 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 395019014425 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019014426 catalytic residue [active] 395019014427 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 395019014428 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 395019014429 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 395019014430 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 395019014431 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 395019014432 4Fe-4S binding domain; Region: Fer4; cl02805 395019014433 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 395019014434 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 395019014435 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 395019014436 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 395019014437 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 395019014438 molybdopterin cofactor binding site; other site 395019014439 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 395019014440 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 395019014441 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019014442 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019014443 trimer interface [polypeptide binding]; other site 395019014444 eyelet of channel; other site 395019014445 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 395019014446 dimer interface [polypeptide binding]; other site 395019014447 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 395019014448 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 395019014449 active site 395019014450 tetramer interface; other site 395019014451 Acyltransferase family; Region: Acyl_transf_3; pfam01757 395019014452 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395019014453 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 395019014454 putative ADP-binding pocket [chemical binding]; other site 395019014455 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 395019014456 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 395019014457 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 395019014458 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 395019014459 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 395019014460 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 395019014461 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 395019014462 NADP-binding site; other site 395019014463 homotetramer interface [polypeptide binding]; other site 395019014464 substrate binding site [chemical binding]; other site 395019014465 homodimer interface [polypeptide binding]; other site 395019014466 active site 395019014467 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395019014468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019014469 NAD(P) binding site [chemical binding]; other site 395019014470 active site 395019014471 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 395019014472 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 395019014473 homodimer interface [polypeptide binding]; other site 395019014474 substrate-cofactor binding pocket; other site 395019014475 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019014476 catalytic residue [active] 395019014477 amidophosphoribosyltransferase; Provisional; Region: PRK09246 395019014478 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 395019014479 active site 395019014480 tetramer interface [polypeptide binding]; other site 395019014481 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395019014482 active site 395019014483 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 395019014484 Colicin V production protein; Region: Colicin_V; pfam02674 395019014485 Sporulation related domain; Region: SPOR; cl10051 395019014486 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 395019014487 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 395019014488 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 395019014489 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 395019014490 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 395019014491 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 395019014492 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 395019014493 substrate binding site [chemical binding]; other site 395019014494 active site 395019014495 catalytic residues [active] 395019014496 heterodimer interface [polypeptide binding]; other site 395019014497 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 395019014498 DNA methylase; Region: N6_N4_Mtase; pfam01555 395019014499 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 395019014500 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 395019014501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019014502 catalytic residue [active] 395019014503 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 395019014504 active site 395019014505 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 395019014506 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 395019014507 dimerization interface 3.5A [polypeptide binding]; other site 395019014508 active site 395019014509 FimV N-terminal domain; Region: FimV_core; TIGR03505 395019014510 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 395019014511 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 395019014512 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 395019014513 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 395019014514 tartrate dehydrogenase; Region: TTC; TIGR02089 395019014515 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 395019014516 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 395019014517 substrate binding site [chemical binding]; other site 395019014518 Entericidin EcnA/B family; Region: Entericidin; cl02322 395019014519 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 395019014520 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 395019014521 substrate binding site [chemical binding]; other site 395019014522 ligand binding site [chemical binding]; other site 395019014523 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 395019014524 Phosphoesterase family; Region: Phosphoesterase; pfam04185 395019014525 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 395019014526 glutathione s-transferase; Provisional; Region: PTZ00057 395019014527 GSH binding site (G-site) [chemical binding]; other site 395019014528 C-terminal domain interface [polypeptide binding]; other site 395019014529 dimer interface [polypeptide binding]; other site 395019014530 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 395019014531 dimer interface [polypeptide binding]; other site 395019014532 N-terminal domain interface [polypeptide binding]; other site 395019014533 substrate binding pocket (H-site) [chemical binding]; other site 395019014534 lysine transporter; Provisional; Region: PRK10836 395019014535 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019014536 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 395019014537 AsnC family; Region: AsnC_trans_reg; pfam01037 395019014538 Amidinotransferase; Region: Amidinotransf; cl12043 395019014539 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 395019014540 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 395019014541 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019014542 Cupin domain; Region: Cupin_2; cl17218 395019014543 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019014544 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019014545 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 395019014546 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 395019014547 dimer interface [polypeptide binding]; other site 395019014548 active site 395019014549 citrylCoA binding site [chemical binding]; other site 395019014550 NADH binding [chemical binding]; other site 395019014551 cationic pore residues; other site 395019014552 oxalacetate/citrate binding site [chemical binding]; other site 395019014553 coenzyme A binding site [chemical binding]; other site 395019014554 catalytic triad [active] 395019014555 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 395019014556 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 395019014557 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 395019014558 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 395019014559 L-aspartate oxidase; Provisional; Region: PRK06175 395019014560 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395019014561 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 395019014562 SdhC subunit interface [polypeptide binding]; other site 395019014563 proximal heme binding site [chemical binding]; other site 395019014564 cardiolipin binding site; other site 395019014565 Iron-sulfur protein interface; other site 395019014566 proximal quinone binding site [chemical binding]; other site 395019014567 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 395019014568 Iron-sulfur protein interface; other site 395019014569 proximal quinone binding site [chemical binding]; other site 395019014570 SdhD (CybS) interface [polypeptide binding]; other site 395019014571 proximal heme binding site [chemical binding]; other site 395019014572 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 395019014573 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019014574 DNA-binding site [nucleotide binding]; DNA binding site 395019014575 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 395019014576 malate dehydrogenase; Provisional; Region: PRK05442 395019014577 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 395019014578 NAD(P) binding site [chemical binding]; other site 395019014579 dimer interface [polypeptide binding]; other site 395019014580 malate binding site [chemical binding]; other site 395019014581 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 395019014582 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 395019014583 2-methylcitrate dehydratase; Region: prpD; TIGR02330 395019014584 aconitate hydratase; Provisional; Region: acnA; PRK12881 395019014585 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 395019014586 substrate binding site [chemical binding]; other site 395019014587 ligand binding site [chemical binding]; other site 395019014588 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 395019014589 substrate binding site [chemical binding]; other site 395019014590 Domain of unknown function (DU1801); Region: DUF1801; cl17490 395019014591 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 395019014592 putative hydrophobic ligand binding site [chemical binding]; other site 395019014593 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 395019014594 dimerization interface [polypeptide binding]; other site 395019014595 putative DNA binding site [nucleotide binding]; other site 395019014596 putative Zn2+ binding site [ion binding]; other site 395019014597 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 395019014598 peptidase domain interface [polypeptide binding]; other site 395019014599 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 395019014600 active site 395019014601 catalytic triad [active] 395019014602 calcium binding site [ion binding]; other site 395019014603 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 395019014604 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019014605 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 395019014606 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395019014607 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 395019014608 dimer interface [polypeptide binding]; other site 395019014609 conserved gate region; other site 395019014610 putative PBP binding loops; other site 395019014611 ABC-ATPase subunit interface; other site 395019014612 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 395019014613 dimer interface [polypeptide binding]; other site 395019014614 conserved gate region; other site 395019014615 putative PBP binding loops; other site 395019014616 ABC-ATPase subunit interface; other site 395019014617 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395019014618 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395019014619 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395019014620 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 395019014621 Walker A/P-loop; other site 395019014622 ATP binding site [chemical binding]; other site 395019014623 Q-loop/lid; other site 395019014624 ABC transporter signature motif; other site 395019014625 Walker B; other site 395019014626 D-loop; other site 395019014627 H-loop/switch region; other site 395019014628 TOBE domain; Region: TOBE_2; pfam08402 395019014629 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019014630 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019014631 DNA-binding site [nucleotide binding]; DNA binding site 395019014632 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 395019014633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019014634 homodimer interface [polypeptide binding]; other site 395019014635 catalytic residue [active] 395019014636 lipase chaperone; Provisional; Region: PRK01294 395019014637 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 395019014638 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 395019014639 Lipase (class 2); Region: Lipase_2; pfam01674 395019014640 PGAP1-like protein; Region: PGAP1; pfam07819 395019014641 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 395019014642 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 395019014643 N-terminal plug; other site 395019014644 ligand-binding site [chemical binding]; other site 395019014645 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 395019014646 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 395019014647 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 395019014648 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 395019014649 E3 interaction surface; other site 395019014650 lipoyl attachment site [posttranslational modification]; other site 395019014651 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019014652 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395019014653 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 395019014654 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 395019014655 Methyltransferase domain; Region: Methyltransf_23; pfam13489 395019014656 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 395019014657 S-adenosylmethionine binding site [chemical binding]; other site 395019014658 NAD-dependent deacetylase; Provisional; Region: PRK05333 395019014659 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 395019014660 NAD+ binding site [chemical binding]; other site 395019014661 substrate binding site [chemical binding]; other site 395019014662 Zn binding site [ion binding]; other site 395019014663 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 395019014664 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395019014665 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395019014666 Mechanosensitive ion channel; Region: MS_channel; pfam00924 395019014667 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 395019014668 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019014669 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 395019014670 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 395019014671 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019014672 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019014673 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019014674 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 395019014675 putative substrate translocation pore; other site 395019014676 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 395019014677 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019014678 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019014679 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019014680 Methyltransferase domain; Region: Methyltransf_24; pfam13578 395019014681 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 395019014682 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395019014683 NAD binding site [chemical binding]; other site 395019014684 catalytic Zn binding site [ion binding]; other site 395019014685 structural Zn binding site [ion binding]; other site 395019014686 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 395019014687 DNA photolyase; Region: DNA_photolyase; pfam00875 395019014688 Cache domain; Region: Cache_1; pfam02743 395019014689 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019014690 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019014691 metal binding site [ion binding]; metal-binding site 395019014692 active site 395019014693 I-site; other site 395019014694 PAS fold; Region: PAS_3; pfam08447 395019014695 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 395019014696 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019014697 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 395019014698 dimer interface [polypeptide binding]; other site 395019014699 phosphorylation site [posttranslational modification] 395019014700 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 395019014701 ATP binding site [chemical binding]; other site 395019014702 Mg2+ binding site [ion binding]; other site 395019014703 G-X-G motif; other site 395019014704 Response regulator receiver domain; Region: Response_reg; pfam00072 395019014705 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 395019014706 active site 395019014707 phosphorylation site [posttranslational modification] 395019014708 intermolecular recognition site; other site 395019014709 dimerization interface [polypeptide binding]; other site 395019014710 CheB methylesterase; Region: CheB_methylest; pfam01339 395019014711 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 395019014712 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 395019014713 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 395019014714 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395019014715 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 395019014716 putative active site [active] 395019014717 heme pocket [chemical binding]; other site 395019014718 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 395019014719 dimer interface [polypeptide binding]; other site 395019014720 phosphorylation site [posttranslational modification] 395019014721 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 395019014722 ATP binding site [chemical binding]; other site 395019014723 Mg2+ binding site [ion binding]; other site 395019014724 G-X-G motif; other site 395019014725 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 395019014726 Response regulator receiver domain; Region: Response_reg; pfam00072 395019014727 active site 395019014728 phosphorylation site [posttranslational modification] 395019014729 intermolecular recognition site; other site 395019014730 dimerization interface [polypeptide binding]; other site 395019014731 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 395019014732 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 395019014733 active site 395019014734 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 395019014735 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 395019014736 putative substrate translocation pore; other site 395019014737 H+ Antiporter protein; Region: 2A0121; TIGR00900 395019014738 benzoate transport; Region: 2A0115; TIGR00895 395019014739 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 395019014740 putative substrate translocation pore; other site 395019014741 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 395019014742 Amidohydrolase; Region: Amidohydro_2; pfam04909 395019014743 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019014744 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019014745 trimer interface [polypeptide binding]; other site 395019014746 eyelet of channel; other site 395019014747 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 395019014748 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 395019014749 putative substrate translocation pore; other site 395019014750 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 395019014751 Strictosidine synthase; Region: Str_synth; pfam03088 395019014752 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 395019014753 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 395019014754 ligand binding site [chemical binding]; other site 395019014755 NAD binding site [chemical binding]; other site 395019014756 dimerization interface [polypeptide binding]; other site 395019014757 catalytic site [active] 395019014758 hypothetical protein; Validated; Region: PRK06201 395019014759 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 395019014760 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019014761 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395019014762 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019014763 Caspase domain; Region: Peptidase_C14; pfam00656 395019014764 ski2-like helicase; Provisional; Region: PRK02362 395019014765 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 395019014766 ATP binding site [chemical binding]; other site 395019014767 putative Mg++ binding site [ion binding]; other site 395019014768 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 395019014769 nucleotide binding region [chemical binding]; other site 395019014770 ATP-binding site [chemical binding]; other site 395019014771 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 395019014772 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 395019014773 Bacterial TniB protein; Region: TniB; pfam05621 395019014774 AAA domain; Region: AAA_22; pfam13401 395019014775 TniQ; Region: TniQ; pfam06527 395019014776 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 395019014777 HTH-like domain; Region: HTH_21; pfam13276 395019014778 Integrase core domain; Region: rve; pfam00665 395019014779 Integrase core domain; Region: rve_3; pfam13683 395019014780 Transposase; Region: HTH_Tnp_1; pfam01527 395019014781 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019014782 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 395019014783 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 395019014784 Walker A motif; other site 395019014785 ATP binding site [chemical binding]; other site 395019014786 Walker B motif; other site 395019014787 arginine finger; other site 395019014788 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019014789 MULE transposase domain; Region: MULE; pfam10551 395019014790 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 395019014791 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; cl17257 395019014792 DNA binding residues [nucleotide binding] 395019014793 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019014794 Integrase core domain; Region: rve; pfam00665 395019014795 Integrase core domain; Region: rve_3; cl15866 395019014796 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019014797 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019014798 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 395019014799 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 395019014800 Walker A motif; other site 395019014801 ATP binding site [chemical binding]; other site 395019014802 Walker B motif; other site 395019014803 arginine finger; other site 395019014804 Integrase core domain; Region: rve; pfam00665 395019014805 Putative zinc-finger; Region: zf-HC2; pfam13490 395019014806 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 395019014807 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019014808 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395019014809 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019014810 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 395019014811 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019014812 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 395019014813 Walker A motif; other site 395019014814 ATP binding site [chemical binding]; other site 395019014815 Walker B motif; other site 395019014816 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019014817 Integrase core domain; Region: rve; pfam00665 395019014818 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 395019014819 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 395019014820 Integrase core domain; Region: rve; pfam00665 395019014821 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 395019014822 Bacterial TniB protein; Region: TniB; pfam05621 395019014823 AAA domain; Region: AAA_22; pfam13401 395019014824 TniQ; Region: TniQ; pfam06527 395019014825 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 395019014826 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 395019014827 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 395019014828 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 395019014829 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 395019014830 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 395019014831 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 395019014832 Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The...; Region: Piwi-like; cl00628 395019014833 5' RNA guide strand anchoring site; other site 395019014834 active site 395019014835 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 395019014836 NHL repeat; Region: NHL; pfam01436 395019014837 Uncharacterized conserved protein [Function unknown]; Region: COG3391 395019014838 NHL repeat; Region: NHL; pfam01436 395019014839 amidase; Provisional; Region: PRK07056 395019014840 Amidase; Region: Amidase; cl11426 395019014841 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019014842 ABC transporter signature motif; other site 395019014843 Walker B; other site 395019014844 D-loop; other site 395019014845 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395019014846 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395019014847 Walker A/P-loop; other site 395019014848 ATP binding site [chemical binding]; other site 395019014849 Q-loop/lid; other site 395019014850 ABC transporter signature motif; other site 395019014851 Walker B; other site 395019014852 D-loop; other site 395019014853 H-loop/switch region; other site 395019014854 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395019014855 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395019014856 Walker A/P-loop; other site 395019014857 ATP binding site [chemical binding]; other site 395019014858 Q-loop/lid; other site 395019014859 ABC transporter signature motif; other site 395019014860 Walker B; other site 395019014861 D-loop; other site 395019014862 H-loop/switch region; other site 395019014863 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395019014864 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395019014865 TM-ABC transporter signature motif; other site 395019014866 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019014867 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395019014868 TM-ABC transporter signature motif; other site 395019014869 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019014870 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395019014871 dimerization interface [polypeptide binding]; other site 395019014872 ligand binding site [chemical binding]; other site 395019014873 Uncharacterized conserved protein [Function unknown]; Region: COG3391 395019014874 NHL repeat; Region: NHL; pfam01436 395019014875 Transposase domain (DUF772); Region: DUF772; pfam05598 395019014876 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395019014877 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019014878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019014879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019014880 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 395019014881 dimerization interface [polypeptide binding]; other site 395019014882 Uncharacterized conserved protein [Function unknown]; Region: COG3391 395019014883 NHL repeat; Region: NHL; pfam01436 395019014884 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019014885 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 395019014886 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019014887 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019014888 trimer interface [polypeptide binding]; other site 395019014889 eyelet of channel; other site 395019014890 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 395019014891 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 395019014892 active site 395019014893 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 395019014894 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395019014895 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019014896 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019014897 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019014898 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 395019014899 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019014900 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395019014901 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019014902 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 395019014903 Integrase core domain; Region: rve; pfam00665 395019014904 Integrase core domain; Region: rve_3; pfam13683 395019014905 Transposase; Region: DDE_Tnp_ISL3; pfam01610 395019014906 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 395019014907 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 395019014908 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395019014909 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019014910 dimer interface [polypeptide binding]; other site 395019014911 putative CheW interface [polypeptide binding]; other site 395019014912 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 395019014913 D-galactonate transporter; Region: 2A0114; TIGR00893 395019014914 putative substrate translocation pore; other site 395019014915 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395019014916 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019014917 Nocardioides 2-carboxybenzaldehyde dehydrogenase, PhdK-like; Region: ALDH_PhdK-like; cd07107 395019014918 NAD(P) binding site [chemical binding]; other site 395019014919 catalytic residues [active] 395019014920 catalytic residues [active] 395019014921 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 395019014922 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395019014923 PYR/PP interface [polypeptide binding]; other site 395019014924 dimer interface [polypeptide binding]; other site 395019014925 TPP binding site [chemical binding]; other site 395019014926 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395019014927 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 395019014928 TPP-binding site [chemical binding]; other site 395019014929 dimer interface [polypeptide binding]; other site 395019014930 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395019014931 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 395019014932 substrate binding pocket [chemical binding]; other site 395019014933 membrane-bound complex binding site; other site 395019014934 hinge residues; other site 395019014935 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395019014936 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 395019014937 dimer interface [polypeptide binding]; other site 395019014938 conserved gate region; other site 395019014939 putative PBP binding loops; other site 395019014940 ABC-ATPase subunit interface; other site 395019014941 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395019014942 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395019014943 Walker A/P-loop; other site 395019014944 ATP binding site [chemical binding]; other site 395019014945 Q-loop/lid; other site 395019014946 ABC transporter signature motif; other site 395019014947 Walker B; other site 395019014948 D-loop; other site 395019014949 H-loop/switch region; other site 395019014950 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019014951 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019014952 trimer interface [polypeptide binding]; other site 395019014953 eyelet of channel; other site 395019014954 MarR family; Region: MarR; pfam01047 395019014955 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019014956 MULE transposase domain; Region: MULE; pfam10551 395019014957 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019014958 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019014959 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019014960 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; cl17315 395019014961 DNA binding residues [nucleotide binding] 395019014962 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 395019014963 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 395019014964 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019014965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019014966 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 395019014967 putative effector binding pocket; other site 395019014968 putative dimerization interface [polypeptide binding]; other site 395019014969 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 395019014970 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395019014971 active site 1 [active] 395019014972 dimer interface [polypeptide binding]; other site 395019014973 hexamer interface [polypeptide binding]; other site 395019014974 active site 2 [active] 395019014975 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 395019014976 putative substrate translocation pore; other site 395019014977 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 395019014978 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019014979 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 395019014980 Walker A motif; other site 395019014981 ATP binding site [chemical binding]; other site 395019014982 Walker B motif; other site 395019014983 arginine finger; other site 395019014984 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019014985 Integrase core domain; Region: rve; pfam00665 395019014986 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019014987 putative transporter; Provisional; Region: PRK12382 395019014988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019014989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019014990 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 395019014991 putative effector binding pocket; other site 395019014992 putative dimerization interface [polypeptide binding]; other site 395019014993 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019014994 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 395019014995 putative substrate translocation pore; other site 395019014996 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 395019014997 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 395019014998 putative NAD(P) binding site [chemical binding]; other site 395019014999 putative substrate binding site [chemical binding]; other site 395019015000 catalytic Zn binding site [ion binding]; other site 395019015001 structural Zn binding site [ion binding]; other site 395019015002 dimer interface [polypeptide binding]; other site 395019015003 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 395019015004 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395019015005 active site 395019015006 catalytic tetrad [active] 395019015007 Hemerythrin; Region: Hemerythrin; cd12107 395019015008 Fe binding site [ion binding]; other site 395019015009 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 395019015010 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395019015011 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 395019015012 hydrophobic ligand binding site; other site 395019015013 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 395019015014 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 395019015015 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 395019015016 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019015017 MULE transposase domain; Region: MULE; pfam10551 395019015018 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 395019015019 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 395019015020 dimerization interface [polypeptide binding]; other site 395019015021 active site 395019015022 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019015023 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 395019015024 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 395019015025 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 395019015026 D-galactonate transporter; Region: 2A0114; TIGR00893 395019015027 putative substrate translocation pore; other site 395019015028 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395019015029 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 395019015030 FMN-binding pocket [chemical binding]; other site 395019015031 flavin binding motif; other site 395019015032 phosphate binding motif [ion binding]; other site 395019015033 beta-alpha-beta structure motif; other site 395019015034 NAD binding pocket [chemical binding]; other site 395019015035 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 395019015036 catalytic loop [active] 395019015037 iron binding site [ion binding]; other site 395019015038 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 395019015039 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 395019015040 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395019015041 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 395019015042 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019015043 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 395019015044 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 395019015045 DNA binding residues [nucleotide binding] 395019015046 DNA primase; Validated; Region: dnaG; PRK05667 395019015047 CHC2 zinc finger; Region: zf-CHC2; pfam01807 395019015048 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 395019015049 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 395019015050 active site 395019015051 metal binding site [ion binding]; metal-binding site 395019015052 interdomain interaction site; other site 395019015053 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 395019015054 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 395019015055 Yqey-like protein; Region: YqeY; pfam09424 395019015056 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 395019015057 HI0933-like protein; Region: HI0933_like; pfam03486 395019015058 UGMP family protein; Validated; Region: PRK09604 395019015059 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 395019015060 putative GTP cyclohydrolase; Provisional; Region: PRK13674 395019015061 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 395019015062 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 395019015063 TPP-binding site; other site 395019015064 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 395019015065 PYR/PP interface [polypeptide binding]; other site 395019015066 dimer interface [polypeptide binding]; other site 395019015067 TPP binding site [chemical binding]; other site 395019015068 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395019015069 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 395019015070 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 395019015071 substrate binding pocket [chemical binding]; other site 395019015072 chain length determination region; other site 395019015073 substrate-Mg2+ binding site; other site 395019015074 catalytic residues [active] 395019015075 aspartate-rich region 1; other site 395019015076 active site lid residues [active] 395019015077 aspartate-rich region 2; other site 395019015078 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 395019015079 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395019015080 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395019015081 [2Fe-2S] cluster binding site [ion binding]; other site 395019015082 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 395019015083 alpha subunit interface [polypeptide binding]; other site 395019015084 active site 395019015085 substrate binding site [chemical binding]; other site 395019015086 Fe binding site [ion binding]; other site 395019015087 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 395019015088 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 395019015089 active site residue [active] 395019015090 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 395019015091 active site residue [active] 395019015092 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395019015093 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 395019015094 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 395019015095 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019015096 DNA polymerase I; Provisional; Region: PRK05755 395019015097 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 395019015098 active site 395019015099 metal binding site 1 [ion binding]; metal-binding site 395019015100 putative 5' ssDNA interaction site; other site 395019015101 metal binding site 3; metal-binding site 395019015102 metal binding site 2 [ion binding]; metal-binding site 395019015103 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 395019015104 putative DNA binding site [nucleotide binding]; other site 395019015105 putative metal binding site [ion binding]; other site 395019015106 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 395019015107 active site 395019015108 catalytic site [active] 395019015109 substrate binding site [chemical binding]; other site 395019015110 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 395019015111 active site 395019015112 DNA binding site [nucleotide binding] 395019015113 catalytic site [active] 395019015114 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 395019015115 Uncharacterized conserved protein [Function unknown]; Region: COG1683 395019015116 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 395019015117 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019015118 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 395019015119 non-specific DNA binding site [nucleotide binding]; other site 395019015120 salt bridge; other site 395019015121 sequence-specific DNA binding site [nucleotide binding]; other site 395019015122 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 395019015123 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 395019015124 putative active site [active] 395019015125 putative NTP binding site [chemical binding]; other site 395019015126 putative nucleic acid binding site [nucleotide binding]; other site 395019015127 portal vertex protein; Provisional; Region: Q; PHA02536 395019015128 Phage portal protein; Region: Phage_portal; pfam04860 395019015129 terminase ATPase subunit; Provisional; Region: P; PHA02535 395019015130 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 395019015131 Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may...; Region: SynN; cl00143 395019015132 nSec1 interaction sites; other site 395019015133 interdomain interaction site; other site 395019015134 linker region; other site 395019015135 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 395019015136 capsid protein; Provisional; Region: N; PHA02538 395019015137 terminase endonuclease subunit; Provisional; Region: M; PHA02537 395019015138 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 395019015139 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 395019015140 hypothetical protein; Region: PHA02417 395019015141 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 395019015142 Protein of unknown function (DUF754); Region: DUF754; pfam05449 395019015143 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 395019015144 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 395019015145 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 395019015146 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 395019015147 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 395019015148 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019015149 Walker A/P-loop; other site 395019015150 ATP binding site [chemical binding]; other site 395019015151 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 395019015152 putative active site [active] 395019015153 putative metal-binding site [ion binding]; other site 395019015154 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 395019015155 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 395019015156 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 395019015157 baseplate assembly protein; Provisional; Region: J; PHA02568 395019015158 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 395019015159 Phage Tail Collar Domain; Region: Collar; pfam07484 395019015160 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 395019015161 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 395019015162 DNA methylase; Region: N6_N4_Mtase; pfam01555 395019015163 major tail sheath protein; Provisional; Region: FI; PHA02560 395019015164 Phage tail tube protein FII; Region: Phage_tube; pfam04985 395019015165 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 395019015166 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 395019015167 Phage-related tail protein [Function unknown]; Region: COG5283 395019015168 Phage-related protein [Function unknown]; Region: COG5412 395019015169 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 395019015170 tail protein; Provisional; Region: D; PHA02561 395019015171 Transposase domain (DUF772); Region: DUF772; pfam05598 395019015172 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395019015173 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019015174 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019015175 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 395019015176 non-specific DNA binding site [nucleotide binding]; other site 395019015177 salt bridge; other site 395019015178 sequence-specific DNA binding site [nucleotide binding]; other site 395019015179 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 395019015180 DNA primase domain-containing protein; Region: PHA02415 395019015181 CHC2 zinc finger; Region: zf-CHC2; cl17510 395019015182 Toprim domain; Region: Toprim_3; pfam13362 395019015183 active site 395019015184 metal binding site [ion binding]; metal-binding site 395019015185 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 395019015186 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 395019015187 active site 395019015188 DNA binding site [nucleotide binding] 395019015189 Int/Topo IB signature motif; other site 395019015190 AMP nucleosidase; Provisional; Region: PRK08292 395019015191 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 395019015192 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 395019015193 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 395019015194 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 395019015195 putative active site [active] 395019015196 putative substrate binding site [chemical binding]; other site 395019015197 ATP binding site [chemical binding]; other site 395019015198 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395019015199 MarR family; Region: MarR; pfam01047 395019015200 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 395019015201 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 395019015202 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 395019015203 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 395019015204 active site 395019015205 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395019015206 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395019015207 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 395019015208 putative PBP binding loops; other site 395019015209 dimer interface [polypeptide binding]; other site 395019015210 ABC-ATPase subunit interface; other site 395019015211 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 395019015212 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019015213 Walker A/P-loop; other site 395019015214 ATP binding site [chemical binding]; other site 395019015215 Q-loop/lid; other site 395019015216 ABC transporter signature motif; other site 395019015217 Walker B; other site 395019015218 D-loop; other site 395019015219 H-loop/switch region; other site 395019015220 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 395019015221 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 395019015222 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 395019015223 molybdenum-pterin binding domain; Region: Mop; TIGR00638 395019015224 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 395019015225 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395019015226 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395019015227 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019015228 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015229 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 395019015230 dimerization interface [polypeptide binding]; other site 395019015231 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 395019015232 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019015233 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 395019015234 dimer interface [polypeptide binding]; other site 395019015235 phosphorylation site [posttranslational modification] 395019015236 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 395019015237 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 395019015238 Domain of unknown function DUF21; Region: DUF21; pfam01595 395019015239 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 395019015240 Transporter associated domain; Region: CorC_HlyC; smart01091 395019015241 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 395019015242 thiamine phosphate binding site [chemical binding]; other site 395019015243 active site 395019015244 pyrophosphate binding site [ion binding]; other site 395019015245 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 395019015246 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 395019015247 active site 395019015248 catalytic site [active] 395019015249 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 395019015250 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 395019015251 S-adenosylmethionine binding site [chemical binding]; other site 395019015252 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 395019015253 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 395019015254 active site 395019015255 metal binding site [ion binding]; metal-binding site 395019015256 RES domain; Region: RES; smart00953 395019015257 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 395019015258 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 395019015259 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 395019015260 substrate binding pocket [chemical binding]; other site 395019015261 membrane-bound complex binding site; other site 395019015262 hinge residues; other site 395019015263 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395019015264 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 395019015265 Walker A motif; other site 395019015266 ATP binding site [chemical binding]; other site 395019015267 Walker B motif; other site 395019015268 arginine finger; other site 395019015269 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395019015270 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 395019015271 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 395019015272 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 395019015273 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 395019015274 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019015275 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019015276 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019015277 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 395019015278 putative substrate translocation pore; other site 395019015279 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 395019015280 Predicted transcriptional regulators [Transcription]; Region: COG1733 395019015281 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 395019015282 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019015283 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395019015284 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 395019015285 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 395019015286 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 395019015287 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 395019015288 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395019015289 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395019015290 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 395019015291 active site 395019015292 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 395019015293 tyrosine kinase; Provisional; Region: PRK11519 395019015294 Chain length determinant protein; Region: Wzz; cl15801 395019015295 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 395019015296 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 395019015297 P-loop; other site 395019015298 Magnesium ion binding site [ion binding]; other site 395019015299 polysaccharide export protein Wza; Provisional; Region: PRK15078 395019015300 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 395019015301 SLBB domain; Region: SLBB; pfam10531 395019015302 SLBB domain; Region: SLBB; pfam10531 395019015303 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395019015304 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 395019015305 active site 395019015306 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 395019015307 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 395019015308 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 395019015309 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 395019015310 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 395019015311 Bacterial sugar transferase; Region: Bac_transf; pfam02397 395019015312 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 395019015313 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 395019015314 Substrate binding site; other site 395019015315 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 395019015316 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 395019015317 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 395019015318 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 395019015319 Rubrerythrin [Energy production and conversion]; Region: COG1592 395019015320 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 395019015321 binuclear metal center [ion binding]; other site 395019015322 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 395019015323 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019015324 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_24; cd09012 395019015325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 395019015326 YCII-related domain; Region: YCII; cl00999 395019015327 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 395019015328 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 395019015329 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 395019015330 Domain of unknown function DUF20; Region: UPF0118; pfam01594 395019015331 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019015332 short chain dehydrogenase; Validated; Region: PRK07069 395019015333 NAD(P) binding site [chemical binding]; other site 395019015334 active site 395019015335 manganese transport protein MntH; Reviewed; Region: PRK00701 395019015336 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 395019015337 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 395019015338 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019015339 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019015340 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 395019015341 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 395019015342 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395019015343 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 395019015344 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 395019015345 Walker A/P-loop; other site 395019015346 ATP binding site [chemical binding]; other site 395019015347 Q-loop/lid; other site 395019015348 ABC transporter signature motif; other site 395019015349 Walker B; other site 395019015350 D-loop; other site 395019015351 H-loop/switch region; other site 395019015352 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 395019015353 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 395019015354 putative Cl- selectivity filter; other site 395019015355 putative pore gating glutamate residue; other site 395019015356 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 395019015357 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 395019015358 active site 395019015359 phosphorylation site [posttranslational modification] 395019015360 intermolecular recognition site; other site 395019015361 CheB methylesterase; Region: CheB_methylest; pfam01339 395019015362 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 395019015363 putative binding surface; other site 395019015364 active site 395019015365 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 395019015366 ATP binding site [chemical binding]; other site 395019015367 Mg2+ binding site [ion binding]; other site 395019015368 G-X-G motif; other site 395019015369 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 395019015370 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 395019015371 Response regulator receiver domain; Region: Response_reg; pfam00072 395019015372 active site 395019015373 phosphorylation site [posttranslational modification] 395019015374 intermolecular recognition site; other site 395019015375 dimerization interface [polypeptide binding]; other site 395019015376 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 395019015377 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 395019015378 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 395019015379 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 395019015380 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 395019015381 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 395019015382 dimerization interface [polypeptide binding]; other site 395019015383 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395019015384 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019015385 dimer interface [polypeptide binding]; other site 395019015386 putative CheW interface [polypeptide binding]; other site 395019015387 Response regulator receiver domain; Region: Response_reg; pfam00072 395019015388 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 395019015389 active site 395019015390 phosphorylation site [posttranslational modification] 395019015391 intermolecular recognition site; other site 395019015392 dimerization interface [polypeptide binding]; other site 395019015393 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019015394 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 395019015395 dimer interface [polypeptide binding]; other site 395019015396 phosphorylation site [posttranslational modification] 395019015397 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 395019015398 ATP binding site [chemical binding]; other site 395019015399 Mg2+ binding site [ion binding]; other site 395019015400 G-X-G motif; other site 395019015401 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 395019015402 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 395019015403 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019015404 NAD(P) binding site [chemical binding]; other site 395019015405 catalytic residues [active] 395019015406 acetolactate synthase; Reviewed; Region: PRK08322 395019015407 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 395019015408 PYR/PP interface [polypeptide binding]; other site 395019015409 dimer interface [polypeptide binding]; other site 395019015410 TPP binding site [chemical binding]; other site 395019015411 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395019015412 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 395019015413 TPP-binding site [chemical binding]; other site 395019015414 dimer interface [polypeptide binding]; other site 395019015415 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 395019015416 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 395019015417 Protein of unknown function (DUF445); Region: DUF445; pfam04286 395019015418 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 395019015419 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019015420 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019015421 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 395019015422 [2Fe-2S] cluster binding site [ion binding]; other site 395019015423 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 395019015424 inter-subunit interface; other site 395019015425 Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H); Region: Rieske_RO_Alpha_OHBDO_like; cd03545 395019015426 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 395019015427 putative alpha subunit interface [polypeptide binding]; other site 395019015428 putative active site [active] 395019015429 putative substrate binding site [chemical binding]; other site 395019015430 Fe binding site [ion binding]; other site 395019015431 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019015432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019015433 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 395019015434 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015435 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 395019015436 dimerizarion interface [polypeptide binding]; other site 395019015437 CrgA pocket; other site 395019015438 substrate binding pocket [chemical binding]; other site 395019015439 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 395019015440 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 395019015441 octamer interface [polypeptide binding]; other site 395019015442 active site 395019015443 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 395019015444 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 395019015445 dimer interface [polypeptide binding]; other site 395019015446 active site 395019015447 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 395019015448 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 395019015449 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019015450 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019015451 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015452 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 395019015453 putative substrate binding pocket [chemical binding]; other site 395019015454 putative dimerization interface [polypeptide binding]; other site 395019015455 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 395019015456 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 395019015457 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 395019015458 active site 395019015459 FMN binding site [chemical binding]; other site 395019015460 2,4-decadienoyl-CoA binding site; other site 395019015461 catalytic residue [active] 395019015462 4Fe-4S cluster binding site [ion binding]; other site 395019015463 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 395019015464 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019015465 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395019015466 Helix-turn-helix domain; Region: HTH_18; pfam12833 395019015467 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019015468 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019015469 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395019015470 dimerization interface [polypeptide binding]; other site 395019015471 ligand binding site [chemical binding]; other site 395019015472 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 395019015473 substrate binding site [chemical binding]; other site 395019015474 Protein of unknown function (DUF521); Region: DUF521; pfam04412 395019015475 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 395019015476 substrate binding site [chemical binding]; other site 395019015477 ligand binding site [chemical binding]; other site 395019015478 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395019015479 MarR family; Region: MarR_2; pfam12802 395019015480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019015481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015482 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 395019015483 putative effector binding pocket; other site 395019015484 dimerization interface [polypeptide binding]; other site 395019015485 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395019015486 MarR family; Region: MarR_2; pfam12802 395019015487 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 395019015488 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019015489 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019015490 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 395019015491 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019015492 putative substrate translocation pore; other site 395019015493 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395019015494 LysE type translocator; Region: LysE; cl00565 395019015495 TIGR02594 family protein; Region: TIGR02594 395019015496 citrate-proton symporter; Provisional; Region: PRK15075 395019015497 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 395019015498 putative substrate translocation pore; other site 395019015499 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395019015500 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395019015501 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019015502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015503 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 395019015504 putative dimerization interface [polypeptide binding]; other site 395019015505 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 395019015506 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019015507 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 395019015508 NAD(P) binding site [chemical binding]; other site 395019015509 catalytic residues [active] 395019015510 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 395019015511 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 395019015512 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019015513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015514 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 395019015515 dimerization interface [polypeptide binding]; other site 395019015516 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019015517 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015518 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019015519 dimerization interface [polypeptide binding]; other site 395019015520 substrate binding pocket [chemical binding]; other site 395019015521 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395019015522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019015523 NAD(P) binding site [chemical binding]; other site 395019015524 active site 395019015525 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 395019015526 D-galactonate transporter; Region: 2A0114; TIGR00893 395019015527 putative substrate translocation pore; other site 395019015528 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 395019015529 TPP-binding site [chemical binding]; other site 395019015530 dimer interface [polypeptide binding]; other site 395019015531 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 395019015532 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 395019015533 PYR/PP interface [polypeptide binding]; other site 395019015534 dimer interface [polypeptide binding]; other site 395019015535 TPP binding site [chemical binding]; other site 395019015536 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395019015537 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019015538 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015539 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019015540 dimerization interface [polypeptide binding]; other site 395019015541 substrate binding pocket [chemical binding]; other site 395019015542 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 395019015543 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019015544 putative substrate translocation pore; other site 395019015545 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 395019015546 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 395019015547 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 395019015548 active site 395019015549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019015550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015551 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 395019015552 dimerization interface [polypeptide binding]; other site 395019015553 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395019015554 Cache domain; Region: Cache_1; pfam02743 395019015555 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 395019015556 dimerization interface [polypeptide binding]; other site 395019015557 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395019015558 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019015559 dimer interface [polypeptide binding]; other site 395019015560 putative CheW interface [polypeptide binding]; other site 395019015561 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 395019015562 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 395019015563 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019015564 ligand binding site [chemical binding]; other site 395019015565 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 395019015566 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 395019015567 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 395019015568 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 395019015569 ligand binding site [chemical binding]; other site 395019015570 flexible hinge region; other site 395019015571 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 395019015572 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 395019015573 Walker A/P-loop; other site 395019015574 ATP binding site [chemical binding]; other site 395019015575 Q-loop/lid; other site 395019015576 ABC transporter signature motif; other site 395019015577 Walker B; other site 395019015578 D-loop; other site 395019015579 H-loop/switch region; other site 395019015580 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 395019015581 dimer interface [polypeptide binding]; other site 395019015582 conserved gate region; other site 395019015583 putative PBP binding loops; other site 395019015584 ABC-ATPase subunit interface; other site 395019015585 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395019015586 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 395019015587 dimer interface [polypeptide binding]; other site 395019015588 conserved gate region; other site 395019015589 putative PBP binding loops; other site 395019015590 ABC-ATPase subunit interface; other site 395019015591 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 395019015592 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 395019015593 substrate binding pocket [chemical binding]; other site 395019015594 membrane-bound complex binding site; other site 395019015595 hinge residues; other site 395019015596 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 395019015597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019015598 DNA-binding site [nucleotide binding]; DNA binding site 395019015599 UTRA domain; Region: UTRA; pfam07702 395019015600 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 395019015601 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 395019015602 homodimer interface [polypeptide binding]; other site 395019015603 active site 395019015604 TDP-binding site; other site 395019015605 acceptor substrate-binding pocket; other site 395019015606 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019015607 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019015608 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019015609 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 395019015610 lysine transporter; Provisional; Region: PRK10836 395019015611 Cache domain; Region: Cache_1; pfam02743 395019015612 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 395019015613 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019015614 metal binding site [ion binding]; metal-binding site 395019015615 active site 395019015616 I-site; other site 395019015617 Predicted membrane protein [Function unknown]; Region: COG1289 395019015618 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 395019015619 argininosuccinate synthase; Validated; Region: PRK05370 395019015620 argininosuccinate synthase; Provisional; Region: PRK13820 395019015621 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 395019015622 Predicted amidohydrolase [General function prediction only]; Region: COG0388 395019015623 putative active site [active] 395019015624 catalytic triad [active] 395019015625 putative dimer interface [polypeptide binding]; other site 395019015626 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395019015627 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 395019015628 Na binding site [ion binding]; other site 395019015629 Colicin-E5 Imm protein; Region: ImmE5; pfam11480 395019015630 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 395019015631 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 395019015632 putative substrate translocation pore; other site 395019015633 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 395019015634 tartrate dehydrogenase; Region: TTC; TIGR02089 395019015635 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015636 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 395019015637 putative effector binding pocket; other site 395019015638 putative dimerization interface [polypeptide binding]; other site 395019015639 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019015640 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015641 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 395019015642 putative effector binding pocket; other site 395019015643 putative dimerization interface [polypeptide binding]; other site 395019015644 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 395019015645 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019015646 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 395019015647 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019015648 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395019015649 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 395019015650 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 395019015651 S-adenosylmethionine binding site [chemical binding]; other site 395019015652 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 395019015653 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 395019015654 S-adenosylmethionine binding site [chemical binding]; other site 395019015655 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 395019015656 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 395019015657 homodimer interface [polypeptide binding]; other site 395019015658 substrate-cofactor binding pocket; other site 395019015659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019015660 catalytic residue [active] 395019015661 Phosphotransferase enzyme family; Region: APH; pfam01636 395019015662 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 395019015663 active site 395019015664 ATP binding site [chemical binding]; other site 395019015665 substrate binding site [chemical binding]; other site 395019015666 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 395019015667 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 395019015668 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 395019015669 N-terminal plug; other site 395019015670 ligand-binding site [chemical binding]; other site 395019015671 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 395019015672 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395019015673 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 395019015674 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 395019015675 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395019015676 putative C-terminal domain interface [polypeptide binding]; other site 395019015677 putative GSH binding site (G-site) [chemical binding]; other site 395019015678 putative dimer interface [polypeptide binding]; other site 395019015679 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 395019015680 N-terminal domain interface [polypeptide binding]; other site 395019015681 dimer interface [polypeptide binding]; other site 395019015682 substrate binding pocket (H-site) [chemical binding]; other site 395019015683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019015684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015685 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 395019015686 putative effector binding pocket; other site 395019015687 dimerization interface [polypeptide binding]; other site 395019015688 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019015689 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019015690 classical (c) SDRs; Region: SDR_c; cd05233 395019015691 short chain dehydrogenase; Provisional; Region: PRK08267 395019015692 NAD(P) binding site [chemical binding]; other site 395019015693 active site 395019015694 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 395019015695 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 395019015696 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395019015697 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 395019015698 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 395019015699 catalytic site [active] 395019015700 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395019015701 Phospholipid methyltransferase; Region: PEMT; cl17370 395019015702 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 395019015703 hypothetical protein; Provisional; Region: PRK09040 395019015704 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 395019015705 ligand binding site [chemical binding]; other site 395019015706 Domain of unknown function (DUF802); Region: DUF802; pfam05650 395019015707 Domain of unknown function (DUF802); Region: DUF802; pfam05650 395019015708 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 395019015709 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395019015710 mercuric reductase; Validated; Region: PRK06370 395019015711 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395019015712 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019015713 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395019015714 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019015715 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 395019015716 dimerization interface [polypeptide binding]; other site 395019015717 putative Zn2+ binding site [ion binding]; other site 395019015718 putative DNA binding site [nucleotide binding]; other site 395019015719 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019015720 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395019015721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019015722 Walker A/P-loop; other site 395019015723 ATP binding site [chemical binding]; other site 395019015724 Q-loop/lid; other site 395019015725 ABC transporter signature motif; other site 395019015726 Walker B; other site 395019015727 D-loop; other site 395019015728 H-loop/switch region; other site 395019015729 TOBE domain; Region: TOBE_2; pfam08402 395019015730 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 395019015731 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 395019015732 dimer interface [polypeptide binding]; other site 395019015733 conserved gate region; other site 395019015734 putative PBP binding loops; other site 395019015735 ABC-ATPase subunit interface; other site 395019015736 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395019015737 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 395019015738 dimer interface [polypeptide binding]; other site 395019015739 conserved gate region; other site 395019015740 putative PBP binding loops; other site 395019015741 ABC-ATPase subunit interface; other site 395019015742 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 395019015743 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 395019015744 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019015745 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 395019015746 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019015747 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 395019015748 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 395019015749 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019015750 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 395019015751 putative substrate translocation pore; other site 395019015752 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395019015753 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08269 395019015754 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395019015755 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 395019015756 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 395019015757 Helix-turn-helix domain; Region: HTH_18; pfam12833 395019015758 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019015759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015760 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 395019015761 dimerization interface [polypeptide binding]; other site 395019015762 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019015763 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019015764 trimer interface [polypeptide binding]; other site 395019015765 eyelet of channel; other site 395019015766 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 395019015767 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019015768 putative substrate translocation pore; other site 395019015769 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395019015770 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 395019015771 FMN-binding pocket [chemical binding]; other site 395019015772 flavin binding motif; other site 395019015773 phosphate binding motif [ion binding]; other site 395019015774 beta-alpha-beta structure motif; other site 395019015775 NAD binding pocket [chemical binding]; other site 395019015776 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 395019015777 catalytic loop [active] 395019015778 iron binding site [ion binding]; other site 395019015779 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 395019015780 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015781 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 395019015782 substrate binding pocket [chemical binding]; other site 395019015783 dimerization interface [polypeptide binding]; other site 395019015784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019015785 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015786 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 395019015787 substrate binding pocket [chemical binding]; other site 395019015788 dimerization interface [polypeptide binding]; other site 395019015789 Flavin Reductases; Region: FlaRed; cl00801 395019015790 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395019015791 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395019015792 active site 395019015793 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 395019015794 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019015795 putative substrate translocation pore; other site 395019015796 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395019015797 [2Fe-2S] cluster binding site [ion binding]; other site 395019015798 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 395019015799 putative alpha subunit interface [polypeptide binding]; other site 395019015800 putative active site [active] 395019015801 putative substrate binding site [chemical binding]; other site 395019015802 Fe binding site [ion binding]; other site 395019015803 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 395019015804 inter-subunit interface; other site 395019015805 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395019015806 active site 1 [active] 395019015807 dimer interface [polypeptide binding]; other site 395019015808 hexamer interface [polypeptide binding]; other site 395019015809 active site 2 [active] 395019015810 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 395019015811 active site 1 [active] 395019015812 dimer interface [polypeptide binding]; other site 395019015813 hexamer interface [polypeptide binding]; other site 395019015814 active site 2 [active] 395019015815 PAS domain; Region: PAS_9; pfam13426 395019015816 PAS domain S-box; Region: sensory_box; TIGR00229 395019015817 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 395019015818 putative active site [active] 395019015819 heme pocket [chemical binding]; other site 395019015820 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 395019015821 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019015822 dimer interface [polypeptide binding]; other site 395019015823 phosphorylation site [posttranslational modification] 395019015824 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 395019015825 ATP binding site [chemical binding]; other site 395019015826 Mg2+ binding site [ion binding]; other site 395019015827 G-X-G motif; other site 395019015828 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395019015829 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395019015830 active site 395019015831 SnoaL-like domain; Region: SnoaL_4; pfam13577 395019015832 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 395019015833 Amidase; Region: Amidase; cl11426 395019015834 Amidase; Region: Amidase; cl11426 395019015835 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395019015836 classical (c) SDRs; Region: SDR_c; cd05233 395019015837 NAD(P) binding site [chemical binding]; other site 395019015838 active site 395019015839 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395019015840 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 395019015841 active site 395019015842 phosphorylation site [posttranslational modification] 395019015843 intermolecular recognition site; other site 395019015844 dimerization interface [polypeptide binding]; other site 395019015845 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 395019015846 dimerization interface [polypeptide binding]; other site 395019015847 DNA binding residues [nucleotide binding] 395019015848 Flavin Reductases; Region: FlaRed; cl00801 395019015849 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 395019015850 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019015851 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 395019015852 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 395019015853 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019015854 Coenzyme A binding pocket [chemical binding]; other site 395019015855 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 395019015856 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 395019015857 LssY C-terminus; Region: LssY_C; pfam14067 395019015858 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 395019015859 D-galactonate transporter; Region: 2A0114; TIGR00893 395019015860 putative substrate translocation pore; other site 395019015861 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 395019015862 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395019015863 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 395019015864 active site 395019015865 phosphorylation site [posttranslational modification] 395019015866 intermolecular recognition site; other site 395019015867 dimerization interface [polypeptide binding]; other site 395019015868 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 395019015869 DNA binding site [nucleotide binding] 395019015870 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 395019015871 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019015872 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 395019015873 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 395019015874 dimer interface [polypeptide binding]; other site 395019015875 phosphorylation site [posttranslational modification] 395019015876 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 395019015877 ATP binding site [chemical binding]; other site 395019015878 Mg2+ binding site [ion binding]; other site 395019015879 G-X-G motif; other site 395019015880 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 395019015881 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 395019015882 Walker A/P-loop; other site 395019015883 ATP binding site [chemical binding]; other site 395019015884 Q-loop/lid; other site 395019015885 ABC transporter signature motif; other site 395019015886 Walker B; other site 395019015887 D-loop; other site 395019015888 H-loop/switch region; other site 395019015889 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 395019015890 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 395019015891 Walker A/P-loop; other site 395019015892 ATP binding site [chemical binding]; other site 395019015893 Q-loop/lid; other site 395019015894 ABC transporter signature motif; other site 395019015895 Walker B; other site 395019015896 D-loop; other site 395019015897 H-loop/switch region; other site 395019015898 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019015899 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 395019015900 TM-ABC transporter signature motif; other site 395019015901 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 395019015902 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 395019015903 TM-ABC transporter signature motif; other site 395019015904 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems; Region: PBP1_ABC_ligand_binding_like_14; cd06349 395019015905 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019015906 putative ligand binding site [chemical binding]; other site 395019015907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019015908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015909 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 395019015910 dimerization interface [polypeptide binding]; other site 395019015911 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 395019015912 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 395019015913 hydroxyglutarate oxidase; Provisional; Region: PRK11728 395019015914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 395019015915 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395019015916 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 395019015917 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 395019015918 nucleotide binding site [chemical binding]; other site 395019015919 putative NEF/HSP70 interaction site [polypeptide binding]; other site 395019015920 SBD interface [polypeptide binding]; other site 395019015921 DNA-K related protein; Region: DUF3731; pfam12531 395019015922 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 395019015923 nucleotide binding site [chemical binding]; other site 395019015924 putative NEF/HSP70 interaction site [polypeptide binding]; other site 395019015925 SBD interface [polypeptide binding]; other site 395019015926 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 395019015927 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 395019015928 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 395019015929 putative C-terminal domain interface [polypeptide binding]; other site 395019015930 putative GSH binding site (G-site) [chemical binding]; other site 395019015931 putative dimer interface [polypeptide binding]; other site 395019015932 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 395019015933 dimer interface [polypeptide binding]; other site 395019015934 N-terminal domain interface [polypeptide binding]; other site 395019015935 putative substrate binding pocket (H-site) [chemical binding]; other site 395019015936 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019015937 MarR family; Region: MarR_2; pfam12802 395019015938 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 395019015939 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 395019015940 tetramer interface [polypeptide binding]; other site 395019015941 active site 395019015942 Mg2+/Mn2+ binding site [ion binding]; other site 395019015943 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 395019015944 putative substrate translocation pore; other site 395019015945 Cupin; Region: Cupin_6; pfam12852 395019015946 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019015947 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019015948 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019015949 phosphoenolpyruvate synthase; Validated; Region: PRK06464 395019015950 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 395019015951 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 395019015952 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 395019015953 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 395019015954 enoyl-CoA hydratase; Validated; Region: PRK08788 395019015955 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 395019015956 substrate binding site [chemical binding]; other site 395019015957 oxyanion hole (OAH) forming residues; other site 395019015958 trimer interface [polypeptide binding]; other site 395019015959 RNase II stability modulator; Provisional; Region: PRK10060 395019015960 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 395019015961 metal binding site [ion binding]; metal-binding site 395019015962 active site 395019015963 I-site; other site 395019015964 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 395019015965 5-oxoprolinase; Region: PLN02666 395019015966 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 395019015967 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 395019015968 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 395019015969 benzoate transport; Region: 2A0115; TIGR00895 395019015970 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 395019015971 putative substrate translocation pore; other site 395019015972 hypothetical protein; Provisional; Region: PRK05463 395019015973 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019015974 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015975 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 395019015976 dimerization interface [polypeptide binding]; other site 395019015977 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 395019015978 Uncharacterized conserved protein [Function unknown]; Region: COG1262 395019015979 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 395019015980 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 395019015981 Sulfatase; Region: Sulfatase; cl17466 395019015982 Sulfatase; Region: Sulfatase; cl17466 395019015983 Sulfatase; Region: Sulfatase; cl17466 395019015984 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 395019015985 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 395019015986 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 395019015987 haemagglutination activity domain; Region: Haemagg_act; pfam05860 395019015988 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 395019015989 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 395019015990 putative substrate translocation pore; other site 395019015991 EamA-like transporter family; Region: EamA; pfam00892 395019015992 transcriptional regulator; Provisional; Region: PRK10632 395019015993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019015994 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_6; cd08475 395019015995 putative effector binding pocket; other site 395019015996 putative dimerization interface [polypeptide binding]; other site 395019015997 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 395019015998 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395019015999 putative NAD(P) binding site [chemical binding]; other site 395019016000 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019016001 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019016002 trimer interface [polypeptide binding]; other site 395019016003 eyelet of channel; other site 395019016004 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 395019016005 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 395019016006 substrate binding pocket [chemical binding]; other site 395019016007 membrane-bound complex binding site; other site 395019016008 hinge residues; other site 395019016009 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 395019016010 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 395019016011 metal binding site [ion binding]; metal-binding site 395019016012 putative dimer interface [polypeptide binding]; other site 395019016013 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 395019016014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016015 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 395019016016 dimerization interface [polypeptide binding]; other site 395019016017 LysE type translocator; Region: LysE; cl00565 395019016018 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395019016019 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 395019016020 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 395019016021 putative NAD(P) binding site [chemical binding]; other site 395019016022 putative active site [active] 395019016023 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019016024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016025 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019016026 dimerization interface [polypeptide binding]; other site 395019016027 substrate binding pocket [chemical binding]; other site 395019016028 aminotransferase A; Validated; Region: PRK07683 395019016029 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 395019016030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019016031 homodimer interface [polypeptide binding]; other site 395019016032 catalytic residue [active] 395019016033 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 395019016034 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 395019016035 substrate binding site [chemical binding]; other site 395019016036 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 395019016037 substrate binding site [chemical binding]; other site 395019016038 ligand binding site [chemical binding]; other site 395019016039 DinB superfamily; Region: DinB_2; pfam12867 395019016040 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019016041 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019016042 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395019016043 dimerization interface [polypeptide binding]; other site 395019016044 ligand binding site [chemical binding]; other site 395019016045 CsbD-like; Region: CsbD; pfam05532 395019016046 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 395019016047 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395019016048 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 395019016049 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395019016050 putative active site [active] 395019016051 heme pocket [chemical binding]; other site 395019016052 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 395019016053 putative active site [active] 395019016054 heme pocket [chemical binding]; other site 395019016055 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019016056 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 395019016057 DNA binding residues [nucleotide binding] 395019016058 dimerization interface [polypeptide binding]; other site 395019016059 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 395019016060 CsbD-like; Region: CsbD; cl17424 395019016061 similar to hypothetical protein 395019016062 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 395019016063 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019016064 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016065 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 395019016066 dimerization interface [polypeptide binding]; other site 395019016067 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 395019016068 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 395019016069 tetrameric interface [polypeptide binding]; other site 395019016070 activator binding site; other site 395019016071 NADP binding site [chemical binding]; other site 395019016072 substrate binding site [chemical binding]; other site 395019016073 catalytic residues [active] 395019016074 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 395019016075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019016076 NADH(P)-binding; Region: NAD_binding_10; pfam13460 395019016077 NAD(P) binding site [chemical binding]; other site 395019016078 active site 395019016079 Transcriptional regulators [Transcription]; Region: PurR; COG1609 395019016080 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 395019016081 DNA binding site [nucleotide binding] 395019016082 domain linker motif; other site 395019016083 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 395019016084 dimerization interface [polypeptide binding]; other site 395019016085 ligand binding site [chemical binding]; other site 395019016086 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 395019016087 Major Facilitator Superfamily; Region: MFS_1; pfam07690 395019016088 putative substrate translocation pore; other site 395019016089 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 395019016090 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 395019016091 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019016092 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019016093 AlkA N-terminal domain; Region: AlkA_N; pfam06029 395019016094 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 395019016095 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 395019016096 minor groove reading motif; other site 395019016097 helix-hairpin-helix signature motif; other site 395019016098 substrate binding pocket [chemical binding]; other site 395019016099 active site 395019016100 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 395019016101 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 395019016102 DNA binding site [nucleotide binding] 395019016103 active site 395019016104 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 395019016105 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019016106 AsnC family; Region: AsnC_trans_reg; pfam01037 395019016107 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 395019016108 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 395019016109 glutaminase active site [active] 395019016110 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 395019016111 dimer interface [polypeptide binding]; other site 395019016112 active site 395019016113 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 395019016114 dimer interface [polypeptide binding]; other site 395019016115 active site 395019016116 short chain dehydrogenase; Provisional; Region: PRK06523 395019016117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019016118 NAD(P) binding site [chemical binding]; other site 395019016119 active site 395019016120 Predicted transcriptional regulators [Transcription]; Region: COG1733 395019016121 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 395019016122 mercuric reductase; Validated; Region: PRK06370 395019016123 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019016124 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 395019016125 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 395019016126 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 395019016127 putative NAD(P) binding site [chemical binding]; other site 395019016128 dimer interface [polypeptide binding]; other site 395019016129 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395019016130 TAP-like protein; Region: Abhydrolase_4; pfam08386 395019016131 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 395019016132 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395019016133 NAD(P) binding site [chemical binding]; other site 395019016134 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 395019016135 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 395019016136 Response regulator receiver domain; Region: Response_reg; pfam00072 395019016137 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 395019016138 active site 395019016139 phosphorylation site [posttranslational modification] 395019016140 intermolecular recognition site; other site 395019016141 dimerization interface [polypeptide binding]; other site 395019016142 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 395019016143 PAS domain; Region: PAS_9; pfam13426 395019016144 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019016145 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 395019016146 ATP binding site [chemical binding]; other site 395019016147 Mg2+ binding site [ion binding]; other site 395019016148 G-X-G motif; other site 395019016149 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 395019016150 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 395019016151 active site 395019016152 phosphorylation site [posttranslational modification] 395019016153 intermolecular recognition site; other site 395019016154 dimerization interface [polypeptide binding]; other site 395019016155 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 395019016156 DNA binding residues [nucleotide binding] 395019016157 dimerization interface [polypeptide binding]; other site 395019016158 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395019016159 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395019016160 conserved cys residue [active] 395019016161 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019016162 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019016163 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019016164 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019016165 trimer interface [polypeptide binding]; other site 395019016166 eyelet of channel; other site 395019016167 Predicted membrane protein [Function unknown]; Region: COG3503 395019016168 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 395019016169 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 395019016170 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 395019016171 catalytic residue [active] 395019016172 Putative phosphatase (DUF442); Region: DUF442; cl17385 395019016173 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 395019016174 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 395019016175 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 395019016176 generic binding surface I; other site 395019016177 generic binding surface II; other site 395019016178 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 395019016179 putative active site [active] 395019016180 putative catalytic site [active] 395019016181 putative Mg binding site IVb [ion binding]; other site 395019016182 putative phosphate binding site [ion binding]; other site 395019016183 putative DNA binding site [nucleotide binding]; other site 395019016184 putative Mg binding site IVa [ion binding]; other site 395019016185 D-galactonate transporter; Region: 2A0114; TIGR00893 395019016186 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 395019016187 putative substrate translocation pore; other site 395019016188 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019016189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016190 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 395019016191 dimerization interface [polypeptide binding]; other site 395019016192 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 395019016193 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019016194 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 395019016195 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019016196 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 395019016197 DNA binding residues [nucleotide binding] 395019016198 dimerization interface [polypeptide binding]; other site 395019016199 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 395019016200 agmatinase; Region: agmatinase; TIGR01230 395019016201 oligomer interface [polypeptide binding]; other site 395019016202 putative active site [active] 395019016203 Mn binding site [ion binding]; other site 395019016204 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019016205 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 395019016206 NAD(P) binding site [chemical binding]; other site 395019016207 catalytic residues [active] 395019016208 catalytic residues [active] 395019016209 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 395019016210 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019016211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016212 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 395019016213 dimerization interface [polypeptide binding]; other site 395019016214 pyruvate dehydrogenase; Provisional; Region: PRK09124 395019016215 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 395019016216 PYR/PP interface [polypeptide binding]; other site 395019016217 tetramer interface [polypeptide binding]; other site 395019016218 dimer interface [polypeptide binding]; other site 395019016219 TPP binding site [chemical binding]; other site 395019016220 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395019016221 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 395019016222 TPP-binding site [chemical binding]; other site 395019016223 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019016224 AsnC family; Region: AsnC_trans_reg; pfam01037 395019016225 putative fimbrial protein TcfA; Provisional; Region: PRK15308 395019016226 Fungal protein kinase domain similar to the N-terminus of YPK1; Region: YPK1_N_like; cd11651 395019016227 CblD like pilus biogenesis initiator; Region: CblD; cl06460 395019016228 putative fimbrial protein TcfA; Provisional; Region: PRK15308 395019016229 putative fimbrial protein TcfA; Provisional; Region: PRK15308 395019016230 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 395019016231 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 395019016232 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 395019016233 putative DNA binding site [nucleotide binding]; other site 395019016234 putative Zn2+ binding site [ion binding]; other site 395019016235 AsnC family; Region: AsnC_trans_reg; pfam01037 395019016236 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 395019016237 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 395019016238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019016239 catalytic residue [active] 395019016240 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 395019016241 dimer interface [polypeptide binding]; other site 395019016242 phosphorylation site [posttranslational modification] 395019016243 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 395019016244 ATP binding site [chemical binding]; other site 395019016245 Mg2+ binding site [ion binding]; other site 395019016246 G-X-G motif; other site 395019016247 Response regulator receiver domain; Region: Response_reg; pfam00072 395019016248 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 395019016249 active site 395019016250 phosphorylation site [posttranslational modification] 395019016251 intermolecular recognition site; other site 395019016252 dimerization interface [polypeptide binding]; other site 395019016253 transcriptional regulator RcsB; Provisional; Region: PRK10840 395019016254 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 395019016255 active site 395019016256 phosphorylation site [posttranslational modification] 395019016257 intermolecular recognition site; other site 395019016258 dimerization interface [polypeptide binding]; other site 395019016259 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 395019016260 DNA binding residues [nucleotide binding] 395019016261 dimerization interface [polypeptide binding]; other site 395019016262 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 395019016263 dimer interface [polypeptide binding]; other site 395019016264 phosphorylation site [posttranslational modification] 395019016265 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 395019016266 ATP binding site [chemical binding]; other site 395019016267 Mg2+ binding site [ion binding]; other site 395019016268 G-X-G motif; other site 395019016269 Response regulator receiver domain; Region: Response_reg; pfam00072 395019016270 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 395019016271 active site 395019016272 phosphorylation site [posttranslational modification] 395019016273 intermolecular recognition site; other site 395019016274 dimerization interface [polypeptide binding]; other site 395019016275 BetR domain; Region: BetR; pfam08667 395019016276 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395019016277 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 395019016278 active site 395019016279 phosphorylation site [posttranslational modification] 395019016280 intermolecular recognition site; other site 395019016281 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 395019016282 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019016283 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 395019016284 dimer interface [polypeptide binding]; other site 395019016285 phosphorylation site [posttranslational modification] 395019016286 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 395019016287 ATP binding site [chemical binding]; other site 395019016288 Mg2+ binding site [ion binding]; other site 395019016289 G-X-G motif; other site 395019016290 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 395019016291 Response regulator receiver domain; Region: Response_reg; pfam00072 395019016292 active site 395019016293 phosphorylation site [posttranslational modification] 395019016294 intermolecular recognition site; other site 395019016295 dimerization interface [polypeptide binding]; other site 395019016296 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 395019016297 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 395019016298 catalytic residues [active] 395019016299 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 395019016300 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 395019016301 putative substrate translocation pore; other site 395019016302 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 395019016303 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 395019016304 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 395019016305 putative DNA binding site [nucleotide binding]; other site 395019016306 putative Zn2+ binding site [ion binding]; other site 395019016307 AsnC family; Region: AsnC_trans_reg; pfam01037 395019016308 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 395019016309 Predicted membrane protein [Function unknown]; Region: COG4541 395019016310 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 395019016311 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 395019016312 classical (c) SDRs; Region: SDR_c; cd05233 395019016313 NAD(P) binding site [chemical binding]; other site 395019016314 active site 395019016315 Cupin domain; Region: Cupin_2; cl17218 395019016316 allantoate amidohydrolase; Reviewed; Region: PRK12892 395019016317 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 395019016318 active site 395019016319 metal binding site [ion binding]; metal-binding site 395019016320 dimer interface [polypeptide binding]; other site 395019016321 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 395019016322 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016323 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 395019016324 dimerization interface [polypeptide binding]; other site 395019016325 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 395019016326 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 395019016327 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 395019016328 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 395019016329 ATP binding site [chemical binding]; other site 395019016330 Mg++ binding site [ion binding]; other site 395019016331 motif III; other site 395019016332 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 395019016333 nucleotide binding region [chemical binding]; other site 395019016334 ATP-binding site [chemical binding]; other site 395019016335 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 395019016336 putative RNA binding site [nucleotide binding]; other site 395019016337 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 395019016338 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 395019016339 putative di-iron ligands [ion binding]; other site 395019016340 benzoate transporter; Region: benE; TIGR00843 395019016341 Benzoate membrane transport protein; Region: BenE; pfam03594 395019016342 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 395019016343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019016344 NAD(P) binding site [chemical binding]; other site 395019016345 active site 395019016346 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 395019016347 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019016348 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019016349 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019016350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016351 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 395019016352 putative dimerization interface [polypeptide binding]; other site 395019016353 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 395019016354 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019016355 pyrophosphatase PpaX; Provisional; Region: PRK13288 395019016356 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 395019016357 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 395019016358 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 395019016359 dimanganese center [ion binding]; other site 395019016360 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395019016361 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 395019016362 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 395019016363 ring oligomerisation interface [polypeptide binding]; other site 395019016364 ATP/Mg binding site [chemical binding]; other site 395019016365 stacking interactions; other site 395019016366 hinge regions; other site 395019016367 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 395019016368 oligomerisation interface [polypeptide binding]; other site 395019016369 mobile loop; other site 395019016370 roof hairpin; other site 395019016371 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 395019016372 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 395019016373 DNA polymerase II; Reviewed; Region: PRK05762 395019016374 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 395019016375 active site 395019016376 catalytic site [active] 395019016377 substrate binding site [chemical binding]; other site 395019016378 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 395019016379 active site 395019016380 metal-binding site 395019016381 DnaJ domain; Region: DnaJ; pfam00226 395019016382 HSP70 interaction site [polypeptide binding]; other site 395019016383 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 395019016384 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395019016385 substrate binding pocket [chemical binding]; other site 395019016386 membrane-bound complex binding site; other site 395019016387 hinge residues; other site 395019016388 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 395019016389 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 395019016390 Walker A/P-loop; other site 395019016391 ATP binding site [chemical binding]; other site 395019016392 Q-loop/lid; other site 395019016393 ABC transporter signature motif; other site 395019016394 Walker B; other site 395019016395 D-loop; other site 395019016396 H-loop/switch region; other site 395019016397 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395019016398 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 395019016399 dimer interface [polypeptide binding]; other site 395019016400 conserved gate region; other site 395019016401 putative PBP binding loops; other site 395019016402 ABC-ATPase subunit interface; other site 395019016403 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 395019016404 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 395019016405 dimer interface [polypeptide binding]; other site 395019016406 conserved gate region; other site 395019016407 putative PBP binding loops; other site 395019016408 ABC-ATPase subunit interface; other site 395019016409 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395019016410 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395019016411 inhibitor site; inhibition site 395019016412 active site 395019016413 dimer interface [polypeptide binding]; other site 395019016414 catalytic residue [active] 395019016415 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 395019016416 Proline racemase; Region: Pro_racemase; pfam05544 395019016417 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019016418 betaine aldehyde dehydrogenase; Region: PLN02467 395019016419 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 395019016420 NAD(P) binding site [chemical binding]; other site 395019016421 catalytic residues [active] 395019016422 catalytic residues [active] 395019016423 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 395019016424 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 395019016425 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395019016426 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019016427 DNA-binding site [nucleotide binding]; DNA binding site 395019016428 FCD domain; Region: FCD; pfam07729 395019016429 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 395019016430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016431 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 395019016432 substrate binding pocket [chemical binding]; other site 395019016433 dimerization interface [polypeptide binding]; other site 395019016434 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 395019016435 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395019016436 active site 395019016437 short chain dehydrogenase; Provisional; Region: PRK06172 395019016438 classical (c) SDRs; Region: SDR_c; cd05233 395019016439 NAD(P) binding site [chemical binding]; other site 395019016440 active site 395019016441 short chain dehydrogenase; Provisional; Region: PRK07035 395019016442 classical (c) SDRs; Region: SDR_c; cd05233 395019016443 NAD(P) binding site [chemical binding]; other site 395019016444 active site 395019016445 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 395019016446 Phosphotransferase enzyme family; Region: APH; pfam01636 395019016447 putative active site [active] 395019016448 putative substrate binding site [chemical binding]; other site 395019016449 ATP binding site [chemical binding]; other site 395019016450 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 395019016451 catalytic core [active] 395019016452 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 395019016453 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 395019016454 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 395019016455 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 395019016456 putative metal binding site [ion binding]; other site 395019016457 putative homodimer interface [polypeptide binding]; other site 395019016458 putative homotetramer interface [polypeptide binding]; other site 395019016459 putative homodimer-homodimer interface [polypeptide binding]; other site 395019016460 putative allosteric switch controlling residues; other site 395019016461 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 395019016462 benzoate transport; Region: 2A0115; TIGR00895 395019016463 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 395019016464 putative substrate translocation pore; other site 395019016465 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 395019016466 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 395019016467 TAP-like protein; Region: Abhydrolase_4; pfam08386 395019016468 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 395019016469 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 395019016470 tetramer interface [polypeptide binding]; other site 395019016471 active site 395019016472 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 395019016473 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 395019016474 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 395019016475 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395019016476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019016477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016478 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 395019016479 substrate binding pocket [chemical binding]; other site 395019016480 dimerization interface [polypeptide binding]; other site 395019016481 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 395019016482 GTP cyclohydrolase I; Provisional; Region: PLN03044 395019016483 active site 395019016484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019016485 short chain dehydrogenase; Provisional; Region: PRK09134 395019016486 NAD(P) binding site [chemical binding]; other site 395019016487 active site 395019016488 serine O-acetyltransferase; Region: cysE; TIGR01172 395019016489 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 395019016490 trimer interface [polypeptide binding]; other site 395019016491 active site 395019016492 substrate binding site [chemical binding]; other site 395019016493 CoA binding site [chemical binding]; other site 395019016494 Transcriptional activator HlyU; Region: HlyU; cl02273 395019016495 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 395019016496 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 395019016497 Ligand Binding Site [chemical binding]; other site 395019016498 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 395019016499 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 395019016500 ligand binding site [chemical binding]; other site 395019016501 flexible hinge region; other site 395019016502 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 395019016503 putative switch regulator; other site 395019016504 non-specific DNA interactions [nucleotide binding]; other site 395019016505 DNA binding site [nucleotide binding] 395019016506 sequence specific DNA binding site [nucleotide binding]; other site 395019016507 putative cAMP binding site [chemical binding]; other site 395019016508 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 395019016509 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016510 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 395019016511 dimerization interface [polypeptide binding]; other site 395019016512 Lysine efflux permease [General function prediction only]; Region: COG1279 395019016513 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 395019016514 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 395019016515 active site 395019016516 catalytic tetrad [active] 395019016517 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019016518 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019016519 Cupin domain; Region: Cupin_2; pfam07883 395019016520 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 395019016521 D-galactonate transporter; Region: 2A0114; TIGR00893 395019016522 putative substrate translocation pore; other site 395019016523 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395019016524 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 395019016525 putative NAD(P) binding site [chemical binding]; other site 395019016526 catalytic Zn binding site [ion binding]; other site 395019016527 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 395019016528 classical (c) SDRs; Region: SDR_c; cd05233 395019016529 NAD(P) binding site [chemical binding]; other site 395019016530 active site 395019016531 Predicted transcriptional regulators [Transcription]; Region: COG1695 395019016532 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 395019016533 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 395019016534 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 395019016535 FAD binding pocket [chemical binding]; other site 395019016536 FAD binding motif [chemical binding]; other site 395019016537 phosphate binding motif [ion binding]; other site 395019016538 NAD binding pocket [chemical binding]; other site 395019016539 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 395019016540 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 395019016541 active site 395019016542 acetoacetate decarboxylase; Provisional; Region: PRK02265 395019016543 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 395019016544 classical (c) SDRs; Region: SDR_c; cd05233 395019016545 NAD(P) binding site [chemical binding]; other site 395019016546 active site 395019016547 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 395019016548 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 395019016549 nucleophile elbow; other site 395019016550 Patatin phospholipase; Region: DUF3734; pfam12536 395019016551 transcriptional activator TtdR; Provisional; Region: PRK09801 395019016552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016553 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 395019016554 putative effector binding pocket; other site 395019016555 putative dimerization interface [polypeptide binding]; other site 395019016556 tartrate dehydrogenase; Region: TTC; TIGR02089 395019016557 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 395019016558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 395019016559 SnoaL-like domain; Region: SnoaL_2; pfam12680 395019016560 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019016561 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019016562 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 395019016563 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 395019016564 NAD(P) binding site [chemical binding]; other site 395019016565 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 395019016566 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 395019016567 substrate-cofactor binding pocket; other site 395019016568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019016569 catalytic residue [active] 395019016570 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019016571 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 395019016572 non-specific DNA binding site [nucleotide binding]; other site 395019016573 salt bridge; other site 395019016574 sequence-specific DNA binding site [nucleotide binding]; other site 395019016575 Cupin domain; Region: Cupin_2; pfam07883 395019016576 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 395019016577 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019016578 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019016579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016580 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019016581 dimerization interface [polypeptide binding]; other site 395019016582 substrate binding pocket [chemical binding]; other site 395019016583 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 395019016584 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 395019016585 GDP-binding site [chemical binding]; other site 395019016586 ACT binding site; other site 395019016587 IMP binding site; other site 395019016588 transcriptional regulator; Provisional; Region: PRK10632 395019016589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016590 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 395019016591 putative effector binding pocket; other site 395019016592 dimerization interface [polypeptide binding]; other site 395019016593 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 395019016594 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019016595 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395019016596 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395019016597 conserved cys residue [active] 395019016598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019016599 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019016600 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 395019016601 Zn2+ binding site [ion binding]; other site 395019016602 Mg2+ binding site [ion binding]; other site 395019016603 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 395019016604 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 395019016605 RES domain; Region: RES; pfam08808 395019016606 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 395019016607 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 395019016608 active site 395019016609 Int/Topo IB signature motif; other site 395019016610 catalytic residues [active] 395019016611 DNA binding site [nucleotide binding] 395019016612 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 395019016613 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 395019016614 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 395019016615 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 395019016616 active site 395019016617 metal binding site [ion binding]; metal-binding site 395019016618 DNA binding site [nucleotide binding] 395019016619 AAA domain; Region: AAA_23; pfam13476 395019016620 P-loop containing region of AAA domain; Region: AAA_29; cl17516 395019016621 AAA domain; Region: AAA_27; pfam13514 395019016622 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 395019016623 HD domain; Region: HD_4; pfam13328 395019016624 Protein of unknown function (DUF429); Region: DUF429; pfam04250 395019016625 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395019016626 Helix-turn-helix domain; Region: HTH_18; pfam12833 395019016627 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019016628 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 395019016629 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 395019016630 active site 395019016631 acyl-activating enzyme (AAE) consensus motif; other site 395019016632 putative CoA binding site [chemical binding]; other site 395019016633 AMP binding site [chemical binding]; other site 395019016634 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 395019016635 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 395019016636 NAD binding site [chemical binding]; other site 395019016637 homodimer interface [polypeptide binding]; other site 395019016638 homotetramer interface [polypeptide binding]; other site 395019016639 active site 395019016640 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 395019016641 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 395019016642 dimer interface [polypeptide binding]; other site 395019016643 active site 395019016644 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 395019016645 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019016646 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 395019016647 allantoate amidohydrolase; Reviewed; Region: PRK12893 395019016648 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 395019016649 active site 395019016650 metal binding site [ion binding]; metal-binding site 395019016651 dimer interface [polypeptide binding]; other site 395019016652 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 395019016653 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 395019016654 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 395019016655 homodimer interface [polypeptide binding]; other site 395019016656 active site 395019016657 FMN binding site [chemical binding]; other site 395019016658 substrate binding site [chemical binding]; other site 395019016659 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 395019016660 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 395019016661 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 395019016662 Na binding site [ion binding]; other site 395019016663 putative substrate binding site [chemical binding]; other site 395019016664 phenylhydantoinase; Validated; Region: PRK08323 395019016665 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 395019016666 tetramer interface [polypeptide binding]; other site 395019016667 active site 395019016668 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395019016669 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395019016670 [2Fe-2S] cluster binding site [ion binding]; other site 395019016671 methionine sulfoxide reductase A; Provisional; Region: PRK14054 395019016672 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 395019016673 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 395019016674 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 395019016675 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 395019016676 catalytic residues [active] 395019016677 methionine sulfoxide reductase B; Provisional; Region: PRK00222 395019016678 SelR domain; Region: SelR; pfam01641 395019016679 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 395019016680 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 395019016681 active site 395019016682 phosphorylation site [posttranslational modification] 395019016683 intermolecular recognition site; other site 395019016684 dimerization interface [polypeptide binding]; other site 395019016685 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 395019016686 DNA binding site [nucleotide binding] 395019016687 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019016688 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 395019016689 dimerization interface [polypeptide binding]; other site 395019016690 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 395019016691 dimer interface [polypeptide binding]; other site 395019016692 phosphorylation site [posttranslational modification] 395019016693 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 395019016694 ATP binding site [chemical binding]; other site 395019016695 Mg2+ binding site [ion binding]; other site 395019016696 G-X-G motif; other site 395019016697 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395019016698 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019016699 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019016700 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 395019016701 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 395019016702 acyl-activating enzyme (AAE) consensus motif; other site 395019016703 putative AMP binding site [chemical binding]; other site 395019016704 putative active site [active] 395019016705 putative CoA binding site [chemical binding]; other site 395019016706 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395019016707 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 395019016708 Helix-turn-helix domain; Region: HTH_18; pfam12833 395019016709 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019016710 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 395019016711 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 395019016712 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 395019016713 active site 395019016714 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 395019016715 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 395019016716 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395019016717 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 395019016718 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 395019016719 beta-ketothiolase; Provisional; Region: PRK09051 395019016720 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 395019016721 dimer interface [polypeptide binding]; other site 395019016722 active site 395019016723 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 395019016724 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 395019016725 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 395019016726 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395019016727 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 395019016728 active site pocket [active] 395019016729 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 395019016730 D-galactonate transporter; Region: 2A0114; TIGR00893 395019016731 putative substrate translocation pore; other site 395019016732 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 395019016733 active site 395019016734 catalytic residues [active] 395019016735 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 395019016736 dimerization interface [polypeptide binding]; other site 395019016737 putative DNA binding site [nucleotide binding]; other site 395019016738 putative Zn2+ binding site [ion binding]; other site 395019016739 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 395019016740 putative hydrophobic ligand binding site [chemical binding]; other site 395019016741 Transcriptional activator HlyU; Region: HlyU; cl02273 395019016742 Autoinducer synthetase; Region: Autoind_synth; cl17404 395019016743 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 395019016744 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 395019016745 dimerization interface [polypeptide binding]; other site 395019016746 putative DNA binding site [nucleotide binding]; other site 395019016747 putative Zn2+ binding site [ion binding]; other site 395019016748 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395019016749 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395019016750 active site 395019016751 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 395019016752 Sodium Bile acid symporter family; Region: SBF; cl17470 395019016753 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 395019016754 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 395019016755 Ligand Binding Site [chemical binding]; other site 395019016756 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 395019016757 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 395019016758 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 395019016759 [4Fe-4S] binding site [ion binding]; other site 395019016760 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 395019016761 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 395019016762 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 395019016763 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 395019016764 molybdopterin cofactor binding site; other site 395019016765 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 395019016766 4Fe-4S binding domain; Region: Fer4; cl02805 395019016767 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 395019016768 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 395019016769 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 395019016770 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 395019016771 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 395019016772 putative substrate translocation pore; other site 395019016773 Phage integrase protein; Region: DUF3701; pfam12482 395019016774 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 395019016775 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 395019016776 Int/Topo IB signature motif; other site 395019016777 HipA N-terminal domain; Region: Couple_hipA; pfam13657 395019016778 HipA-like N-terminal domain; Region: HipA_N; pfam07805 395019016779 HipA-like C-terminal domain; Region: HipA_C; pfam07804 395019016780 transcriptional regulator, y4mF family; Region: couple_hipB; TIGR03070 395019016781 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019016782 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019016783 DNA-binding site [nucleotide binding]; DNA binding site 395019016784 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 395019016785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019016786 homodimer interface [polypeptide binding]; other site 395019016787 catalytic residue [active] 395019016788 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 395019016789 MoaE interaction surface [polypeptide binding]; other site 395019016790 MoeB interaction surface [polypeptide binding]; other site 395019016791 thiocarboxylated glycine; other site 395019016792 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 395019016793 MoaE homodimer interface [polypeptide binding]; other site 395019016794 MoaD interaction [polypeptide binding]; other site 395019016795 active site residues [active] 395019016796 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 395019016797 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 395019016798 FeS/SAM binding site; other site 395019016799 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 395019016800 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 395019016801 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 395019016802 dimer interface [polypeptide binding]; other site 395019016803 putative functional site; other site 395019016804 putative MPT binding site; other site 395019016805 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 395019016806 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 395019016807 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 395019016808 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 395019016809 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 395019016810 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 395019016811 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 395019016812 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 395019016813 homotrimer interaction site [polypeptide binding]; other site 395019016814 putative active site [active] 395019016815 Uncharacterized conserved protein [Function unknown]; Region: COG3342 395019016816 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 395019016817 acetylornithine deacetylase; Provisional; Region: PRK07522 395019016818 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 395019016819 metal binding site [ion binding]; metal-binding site 395019016820 putative dimer interface [polypeptide binding]; other site 395019016821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019016822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016823 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 395019016824 putative substrate binding pocket [chemical binding]; other site 395019016825 dimerization interface [polypeptide binding]; other site 395019016826 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395019016827 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 395019016828 Na binding site [ion binding]; other site 395019016829 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 395019016830 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 395019016831 putative molybdopterin cofactor binding site [chemical binding]; other site 395019016832 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 395019016833 putative molybdopterin cofactor binding site; other site 395019016834 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 395019016835 Clp amino terminal domain; Region: Clp_N; pfam02861 395019016836 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 395019016837 Walker A motif; other site 395019016838 ATP binding site [chemical binding]; other site 395019016839 Walker B motif; other site 395019016840 arginine finger; other site 395019016841 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 395019016842 Walker A motif; other site 395019016843 ATP binding site [chemical binding]; other site 395019016844 Walker B motif; other site 395019016845 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 395019016846 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 395019016847 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 395019016848 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019016849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019016850 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 395019016851 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 395019016852 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019016853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019016854 DNA-binding site [nucleotide binding]; DNA binding site 395019016855 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 395019016856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019016857 homodimer interface [polypeptide binding]; other site 395019016858 catalytic residue [active] 395019016859 formate dehydrogenase; Provisional; Region: PRK07574 395019016860 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 395019016861 NAD binding site [chemical binding]; other site 395019016862 AIFL (apoptosis-inducing factor like) family, N-terminal Rieske domain; members of this family show similarity to human AIFL, containing an N-terminal Rieske domain and a C-terminal pyridine nucleotide-disulfide oxidoreductase domain (Pyr_redox). The...; Region: Rieske_AIFL_N; cd03478 395019016863 [2Fe-2S] cluster binding site [ion binding]; other site 395019016864 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 395019016865 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019016866 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 395019016867 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 395019016868 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 395019016869 active site 395019016870 ATP binding site [chemical binding]; other site 395019016871 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 395019016872 acetylornithine aminotransferase; Provisional; Region: PRK02627 395019016873 inhibitor-cofactor binding pocket; inhibition site 395019016874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019016875 catalytic residue [active] 395019016876 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019016877 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019016878 DNA-binding site [nucleotide binding]; DNA binding site 395019016879 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 395019016880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019016881 homodimer interface [polypeptide binding]; other site 395019016882 catalytic residue [active] 395019016883 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395019016884 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 395019016885 Walker A/P-loop; other site 395019016886 ATP binding site [chemical binding]; other site 395019016887 Q-loop/lid; other site 395019016888 ABC transporter signature motif; other site 395019016889 Walker B; other site 395019016890 D-loop; other site 395019016891 H-loop/switch region; other site 395019016892 TOBE domain; Region: TOBE_2; pfam08402 395019016893 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395019016894 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 395019016895 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 395019016896 dimer interface [polypeptide binding]; other site 395019016897 conserved gate region; other site 395019016898 putative PBP binding loops; other site 395019016899 ABC-ATPase subunit interface; other site 395019016900 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395019016901 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 395019016902 dimer interface [polypeptide binding]; other site 395019016903 conserved gate region; other site 395019016904 putative PBP binding loops; other site 395019016905 ABC-ATPase subunit interface; other site 395019016906 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 395019016907 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395019016908 NAD binding site [chemical binding]; other site 395019016909 catalytic Zn binding site [ion binding]; other site 395019016910 structural Zn binding site [ion binding]; other site 395019016911 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 395019016912 dimerization interface [polypeptide binding]; other site 395019016913 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395019016914 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 395019016915 putative active site [active] 395019016916 heme pocket [chemical binding]; other site 395019016917 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 395019016918 dimer interface [polypeptide binding]; other site 395019016919 phosphorylation site [posttranslational modification] 395019016920 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 395019016921 ATP binding site [chemical binding]; other site 395019016922 Mg2+ binding site [ion binding]; other site 395019016923 G-X-G motif; other site 395019016924 Response regulator receiver domain; Region: Response_reg; pfam00072 395019016925 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 395019016926 active site 395019016927 phosphorylation site [posttranslational modification] 395019016928 intermolecular recognition site; other site 395019016929 dimerization interface [polypeptide binding]; other site 395019016930 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 395019016931 BON domain; Region: BON; pfam04972 395019016932 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395019016933 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 395019016934 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019016935 Walker A/P-loop; other site 395019016936 ATP binding site [chemical binding]; other site 395019016937 Q-loop/lid; other site 395019016938 ABC transporter signature motif; other site 395019016939 Walker B; other site 395019016940 D-loop; other site 395019016941 H-loop/switch region; other site 395019016942 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 395019016943 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 395019016944 active site 395019016945 phosphorylation site [posttranslational modification] 395019016946 intermolecular recognition site; other site 395019016947 dimerization interface [polypeptide binding]; other site 395019016948 short chain dehydrogenase; Provisional; Region: PRK07326 395019016949 classical (c) SDRs; Region: SDR_c; cd05233 395019016950 NAD(P) binding site [chemical binding]; other site 395019016951 active site 395019016952 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 395019016953 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 395019016954 active site 395019016955 motif I; other site 395019016956 motif II; other site 395019016957 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395019016958 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 395019016959 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 395019016960 putative active site [active] 395019016961 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 395019016962 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 395019016963 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395019016964 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 395019016965 active site 395019016966 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395019016967 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 395019016968 putative active site [active] 395019016969 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 395019016970 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 395019016971 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 395019016972 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 395019016973 Walker A motif; other site 395019016974 ATP binding site [chemical binding]; other site 395019016975 Walker B motif; other site 395019016976 arginine finger; other site 395019016977 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 395019016978 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 395019016979 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 395019016980 active site 395019016981 phosphorylation site [posttranslational modification] 395019016982 intermolecular recognition site; other site 395019016983 dimerization interface [polypeptide binding]; other site 395019016984 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 395019016985 Walker A motif; other site 395019016986 ATP binding site [chemical binding]; other site 395019016987 Walker B motif; other site 395019016988 arginine finger; other site 395019016989 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 395019016990 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 395019016991 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 395019016992 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 395019016993 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 395019016994 putative active site [active] 395019016995 heme pocket [chemical binding]; other site 395019016996 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 395019016997 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 395019016998 putative active site [active] 395019016999 heme pocket [chemical binding]; other site 395019017000 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 395019017001 dimer interface [polypeptide binding]; other site 395019017002 phosphorylation site [posttranslational modification] 395019017003 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 395019017004 ATP binding site [chemical binding]; other site 395019017005 Mg2+ binding site [ion binding]; other site 395019017006 G-X-G motif; other site 395019017007 Response regulator receiver domain; Region: Response_reg; pfam00072 395019017008 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 395019017009 active site 395019017010 phosphorylation site [posttranslational modification] 395019017011 intermolecular recognition site; other site 395019017012 dimerization interface [polypeptide binding]; other site 395019017013 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 395019017014 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 395019017015 NAD binding site [chemical binding]; other site 395019017016 putative substrate binding site 2 [chemical binding]; other site 395019017017 putative substrate binding site 1 [chemical binding]; other site 395019017018 active site 395019017019 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 395019017020 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 395019017021 putative ADP-binding pocket [chemical binding]; other site 395019017022 BON domain; Region: BON; pfam04972 395019017023 short chain dehydrogenase; Provisional; Region: PRK07109 395019017024 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 395019017025 putative NAD(P) binding site [chemical binding]; other site 395019017026 active site 395019017027 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 395019017028 short chain dehydrogenase; Provisional; Region: PRK06701 395019017029 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 395019017030 NAD binding site [chemical binding]; other site 395019017031 metal binding site [ion binding]; metal-binding site 395019017032 active site 395019017033 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 395019017034 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 395019017035 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395019017036 NAD binding site [chemical binding]; other site 395019017037 catalytic Zn binding site [ion binding]; other site 395019017038 structural Zn binding site [ion binding]; other site 395019017039 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 395019017040 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 395019017041 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 395019017042 Fe-S cluster binding site [ion binding]; other site 395019017043 active site 395019017044 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 395019017045 active site 395019017046 phosphorylation site [posttranslational modification] 395019017047 intermolecular recognition site; other site 395019017048 dimerization interface [polypeptide binding]; other site 395019017049 PRC-barrel domain; Region: PRC; pfam05239 395019017050 FOG: CBS domain [General function prediction only]; Region: COG0517 395019017051 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_9; cd04622 395019017052 Domain of unknown function (DUF892); Region: DUF892; pfam05974 395019017053 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 395019017054 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 395019017055 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 395019017056 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 395019017057 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 395019017058 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 395019017059 putative DNA binding site [nucleotide binding]; other site 395019017060 putative homodimer interface [polypeptide binding]; other site 395019017061 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 395019017062 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 395019017063 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 395019017064 active site 395019017065 DNA binding site [nucleotide binding] 395019017066 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 395019017067 DNA binding site [nucleotide binding] 395019017068 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 395019017069 nucleotide binding site [chemical binding]; other site 395019017070 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 395019017071 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 395019017072 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 395019017073 intracellular protease, PfpI family; Region: PfpI; TIGR01382 395019017074 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 395019017075 proposed catalytic triad [active] 395019017076 conserved cys residue [active] 395019017077 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 395019017078 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 395019017079 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 395019017080 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 395019017081 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 395019017082 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 395019017083 active site 395019017084 catalytic site [active] 395019017085 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 395019017086 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 395019017087 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 395019017088 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 395019017089 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 395019017090 active site 395019017091 catalytic site [active] 395019017092 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 395019017093 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 395019017094 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 395019017095 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 395019017096 active site 395019017097 catalytic site [active] 395019017098 glycogen branching enzyme; Provisional; Region: PRK05402 395019017099 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 395019017100 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 395019017101 active site 395019017102 catalytic site [active] 395019017103 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 395019017104 trehalose synthase; Region: treS_nterm; TIGR02456 395019017105 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 395019017106 active site 395019017107 catalytic site [active] 395019017108 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 395019017109 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 395019017110 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 395019017111 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 395019017112 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 395019017113 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 395019017114 active site 395019017115 homodimer interface [polypeptide binding]; other site 395019017116 catalytic site [active] 395019017117 acceptor binding site [chemical binding]; other site 395019017118 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 395019017119 putative catalytic site [active] 395019017120 putative metal binding site [ion binding]; other site 395019017121 putative phosphate binding site [ion binding]; other site 395019017122 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 395019017123 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 395019017124 putative active site [active] 395019017125 catalytic site [active] 395019017126 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 395019017127 putative active site [active] 395019017128 catalytic site [active] 395019017129 Uncharacterized conserved protein [Function unknown]; Region: COG0398 395019017130 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 395019017131 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 395019017132 MgtC family; Region: MgtC; pfam02308 395019017133 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12575 395019017134 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 395019017135 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019017136 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019017137 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 395019017138 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 395019017139 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 395019017140 D-pathway; other site 395019017141 Putative ubiquinol binding site [chemical binding]; other site 395019017142 Low-spin heme (heme b) binding site [chemical binding]; other site 395019017143 Putative water exit pathway; other site 395019017144 Binuclear center (heme o3/CuB) [ion binding]; other site 395019017145 K-pathway; other site 395019017146 Putative proton exit pathway; other site 395019017147 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 395019017148 Subunit I/III interface [polypeptide binding]; other site 395019017149 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 395019017150 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 395019017151 short chain dehydrogenase; Provisional; Region: PRK06181 395019017152 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 395019017153 putative NAD(P) binding site [chemical binding]; other site 395019017154 active site 395019017155 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 395019017156 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 395019017157 thiamine pyrophosphate protein; Provisional; Region: PRK08273 395019017158 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 395019017159 PYR/PP interface [polypeptide binding]; other site 395019017160 dimer interface [polypeptide binding]; other site 395019017161 tetramer interface [polypeptide binding]; other site 395019017162 TPP binding site [chemical binding]; other site 395019017163 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 395019017164 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 395019017165 TPP-binding site [chemical binding]; other site 395019017166 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 3. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_3; cd03328 395019017167 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 395019017168 putative active site pocket [active] 395019017169 putative metal binding site [ion binding]; other site 395019017170 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 395019017171 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 395019017172 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 395019017173 Domain of unknown function (DUF305); Region: DUF305; cl17794 395019017174 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 395019017175 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 395019017176 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 395019017177 FRG domain; Region: FRG; pfam08867 395019017178 Low affinity iron permease; Region: Iron_permease; pfam04120 395019017179 BON domain; Region: BON; pfam04972 395019017180 Uncharacterized conserved protein [Function unknown]; Region: COG2427 395019017181 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 395019017182 nudix motif; other site 395019017183 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 395019017184 dinuclear metal binding motif [ion binding]; other site 395019017185 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 395019017186 dimanganese center [ion binding]; other site 395019017187 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019017188 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 395019017189 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019017190 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 395019017191 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 395019017192 putative substrate translocation pore; other site 395019017193 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 395019017194 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019017195 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 395019017196 EamA-like transporter family; Region: EamA; pfam00892 395019017197 EamA-like transporter family; Region: EamA; pfam00892 395019017198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019017199 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019017200 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019017201 dimerization interface [polypeptide binding]; other site 395019017202 substrate binding pocket [chemical binding]; other site 395019017203 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 395019017204 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 395019017205 Uncharacterized conserved protein [Function unknown]; Region: COG3268 395019017206 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 395019017207 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 395019017208 potential catalytic triad [active] 395019017209 conserved cys residue [active] 395019017210 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 395019017211 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 395019017212 heme-binding site [chemical binding]; other site 395019017213 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 395019017214 FAD binding pocket [chemical binding]; other site 395019017215 FAD binding motif [chemical binding]; other site 395019017216 phosphate binding motif [ion binding]; other site 395019017217 beta-alpha-beta structure motif; other site 395019017218 NAD binding pocket [chemical binding]; other site 395019017219 Heme binding pocket [chemical binding]; other site 395019017220 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 395019017221 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 395019017222 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 395019017223 putative active site [active] 395019017224 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 395019017225 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 395019017226 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 395019017227 active site 395019017228 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 395019017229 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 395019017230 putative active site [active] 395019017231 MgtC family; Region: MgtC; pfam02308 395019017232 FOG: CBS domain [General function prediction only]; Region: COG0517 395019017233 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_9; cd04622 395019017234 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 395019017235 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 395019017236 PAS domain; Region: PAS_9; pfam13426 395019017237 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 395019017238 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 395019017239 dimer interface [polypeptide binding]; other site 395019017240 phosphorylation site [posttranslational modification] 395019017241 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 395019017242 ATP binding site [chemical binding]; other site 395019017243 Mg2+ binding site [ion binding]; other site 395019017244 G-X-G motif; other site 395019017245 Response regulator receiver domain; Region: Response_reg; pfam00072 395019017246 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 395019017247 active site 395019017248 phosphorylation site [posttranslational modification] 395019017249 intermolecular recognition site; other site 395019017250 dimerization interface [polypeptide binding]; other site 395019017251 oxidoreductase; Provisional; Region: PRK06128 395019017252 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 395019017253 NAD binding site [chemical binding]; other site 395019017254 metal binding site [ion binding]; metal-binding site 395019017255 active site 395019017256 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 395019017257 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 395019017258 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 395019017259 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019017260 Walker A/P-loop; other site 395019017261 ATP binding site [chemical binding]; other site 395019017262 Q-loop/lid; other site 395019017263 ABC transporter signature motif; other site 395019017264 Walker B; other site 395019017265 D-loop; other site 395019017266 H-loop/switch region; other site 395019017267 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019017268 Walker A/P-loop; other site 395019017269 ATP binding site [chemical binding]; other site 395019017270 Q-loop/lid; other site 395019017271 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 395019017272 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 395019017273 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 395019017274 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 395019017275 VirB8 protein; Region: VirB8; pfam04335 395019017276 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 395019017277 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 395019017278 VirB7 interaction site; other site 395019017279 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 395019017280 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 395019017281 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395019017282 catalytic residue [active] 395019017283 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 395019017284 VirB7 interaction site; other site 395019017285 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 395019017286 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 395019017287 N-acetyl-D-glucosamine binding site [chemical binding]; other site 395019017288 catalytic residue [active] 395019017289 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 395019017290 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 395019017291 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 395019017292 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 395019017293 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 395019017294 Walker A motif; other site 395019017295 ATP binding site [chemical binding]; other site 395019017296 Walker B motif; other site 395019017297 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 395019017298 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 395019017299 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019017300 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019017301 putative transposase OrfB; Reviewed; Region: PHA02517 395019017302 HTH-like domain; Region: HTH_21; pfam13276 395019017303 Integrase core domain; Region: rve; pfam00665 395019017304 Integrase core domain; Region: rve_2; pfam13333 395019017305 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 395019017306 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 395019017307 Transposase domain (DUF772); Region: DUF772; pfam05598 395019017308 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395019017309 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019017310 Nuclease-related domain; Region: NERD; pfam08378 395019017311 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 395019017312 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 395019017313 dimer interface [polypeptide binding]; other site 395019017314 ssDNA binding site [nucleotide binding]; other site 395019017315 tetramer (dimer of dimers) interface [polypeptide binding]; other site 395019017316 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; cl17533 395019017317 Toprim domain; Region: Toprim_3; pfam13362 395019017318 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 395019017319 PRTRC system protein D; Region: PRTRC_D; TIGR03739 395019017320 Mg binding site [ion binding]; other site 395019017321 nucleotide binding site [chemical binding]; other site 395019017322 putative protofilament interface [polypeptide binding]; other site 395019017323 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 395019017324 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 395019017325 active site 395019017326 catalytic residues [active] 395019017327 DNA binding site [nucleotide binding] 395019017328 Int/Topo IB signature motif; other site 395019017329 Transposase domain (DUF772); Region: DUF772; pfam05598 395019017330 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395019017331 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019017332 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 395019017333 DNA-binding site [nucleotide binding]; DNA binding site 395019017334 RNA-binding motif; other site 395019017335 Restriction alleviation protein Lar; Region: Lar_restr_allev; cl08047 395019017336 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 395019017337 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 395019017338 ParB-like nuclease domain; Region: ParBc; pfam02195 395019017339 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 395019017340 PRTRC system protein E; Region: PRTRC_E; TIGR03741 395019017341 PRTRC system protein C; Region: PRTRC_C; TIGR03738 395019017342 PRTRC system protein F; Region: PRTRC_F; TIGR03742 395019017343 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 395019017344 PRTRC system protein B; Region: PRTRC_B; TIGR03737 395019017345 PRTRC system protein A; Region: PRTRC_A; TIGR03735 395019017346 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 395019017347 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 395019017348 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 395019017349 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 395019017350 ATP binding site [chemical binding]; other site 395019017351 substrate interface [chemical binding]; other site 395019017352 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 395019017353 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 395019017354 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 395019017355 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395019017356 Walker A motif; other site 395019017357 ATP binding site [chemical binding]; other site 395019017358 Walker B motif; other site 395019017359 arginine finger; other site 395019017360 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 395019017361 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 395019017362 metal ion-dependent adhesion site (MIDAS); other site 395019017363 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 395019017364 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 395019017365 Walker A motif; other site 395019017366 hexamer interface [polypeptide binding]; other site 395019017367 ATP binding site [chemical binding]; other site 395019017368 Walker B motif; other site 395019017369 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 395019017370 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 395019017371 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 395019017372 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019017373 Walker A/P-loop; other site 395019017374 ATP binding site [chemical binding]; other site 395019017375 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 395019017376 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 395019017377 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 395019017378 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 395019017379 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 395019017380 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 395019017381 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 395019017382 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 395019017383 Transposase domain (DUF772); Region: DUF772; pfam05598 395019017384 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395019017385 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019017386 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019017387 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019017388 DNA-binding site [nucleotide binding]; DNA binding site 395019017389 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 395019017390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019017391 homodimer interface [polypeptide binding]; other site 395019017392 catalytic residue [active] 395019017393 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 395019017394 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 395019017395 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 395019017396 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 395019017397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 395019017398 Integrase core domain; Region: rve; pfam00665 395019017399 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019017400 Walker A/P-loop; other site 395019017401 ATP binding site [chemical binding]; other site 395019017402 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; cl17257 395019017403 DNA binding residues [nucleotide binding] 395019017404 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019017405 Integrase core domain; Region: rve; pfam00665 395019017406 Integrase core domain; Region: rve_3; cl15866 395019017407 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019017408 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019017409 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 395019017410 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 395019017411 Walker A motif; other site 395019017412 ATP binding site [chemical binding]; other site 395019017413 Walker B motif; other site 395019017414 arginine finger; other site 395019017415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019017416 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 395019017417 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019017418 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 395019017419 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 395019017420 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 395019017421 substrate binding site [chemical binding]; other site 395019017422 catalytic Zn binding site [ion binding]; other site 395019017423 NAD binding site [chemical binding]; other site 395019017424 structural Zn binding site [ion binding]; other site 395019017425 dimer interface [polypeptide binding]; other site 395019017426 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 395019017427 putative homodimer interface [polypeptide binding]; other site 395019017428 putative homotetramer interface [polypeptide binding]; other site 395019017429 putative metal binding site [ion binding]; other site 395019017430 putative homodimer-homodimer interface [polypeptide binding]; other site 395019017431 putative allosteric switch controlling residues; other site 395019017432 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 395019017433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 395019017434 NAD(P) binding site [chemical binding]; other site 395019017435 active site 395019017436 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019017437 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019017438 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019017439 H-loop/switch region; other site 395019017440 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 395019017441 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 395019017442 putative NAD(P) binding site [chemical binding]; other site 395019017443 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 395019017444 putative DNA binding site [nucleotide binding]; other site 395019017445 putative Zn2+ binding site [ion binding]; other site 395019017446 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 395019017447 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395019017448 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 395019017449 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 395019017450 FMN binding site [chemical binding]; other site 395019017451 active site 395019017452 substrate binding site [chemical binding]; other site 395019017453 catalytic residue [active] 395019017454 Integrase core domain; Region: rve_3; cl15866 395019017455 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 395019017456 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 395019017457 putative NAD(P) binding site [chemical binding]; other site 395019017458 dimer interface [polypeptide binding]; other site 395019017459 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019017460 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019017461 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 395019017462 putative effector binding pocket; other site 395019017463 dimerization interface [polypeptide binding]; other site 395019017464 Uncharacterized conserved protein [Function unknown]; Region: COG1359 395019017465 Transposase domain (DUF772); Region: DUF772; pfam05598 395019017466 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395019017467 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019017468 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 395019017469 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 395019017470 conserved cys residue [active] 395019017471 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019017472 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 395019017473 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019017474 putative transposase OrfB; Reviewed; Region: PHA02517 395019017475 HTH-like domain; Region: HTH_21; pfam13276 395019017476 Integrase core domain; Region: rve; pfam00665 395019017477 Integrase core domain; Region: rve_2; pfam13333 395019017478 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 395019017479 Integrase core domain; Region: rve; pfam00665 395019017480 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019017481 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 395019017482 Walker A motif; other site 395019017483 ATP binding site [chemical binding]; other site 395019017484 Walker B motif; other site 395019017485 H-NS histone family; Region: Histone_HNS; pfam00816 395019017486 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 395019017487 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 395019017488 salt bridge; other site 395019017489 non-specific DNA binding site [nucleotide binding]; other site 395019017490 sequence-specific DNA binding site [nucleotide binding]; other site 395019017491 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 395019017492 Divergent AAA domain; Region: AAA_4; pfam04326 395019017493 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 395019017494 Homeodomain-like domain; Region: HTH_23; pfam13384 395019017495 Winged helix-turn helix; Region: HTH_29; pfam13551 395019017496 Homeodomain-like domain; Region: HTH_32; pfam13565 395019017497 DDE superfamily endonuclease; Region: DDE_3; pfam13358 395019017498 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 395019017499 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 395019017500 active site 395019017501 DNA binding site [nucleotide binding] 395019017502 Int/Topo IB signature motif; other site 395019017503 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 395019017504 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 395019017505 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 395019017506 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 395019017507 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 395019017508 P loop; other site 395019017509 Nucleotide binding site [chemical binding]; other site 395019017510 DTAP/Switch II; other site 395019017511 Switch I; other site 395019017512 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 395019017513 DTAP/Switch II; other site 395019017514 Switch I; other site 395019017515 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 395019017516 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 395019017517 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019017518 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 395019017519 ArsC family; Region: ArsC; pfam03960 395019017520 catalytic residues [active] 395019017521 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 395019017522 arsenical-resistance protein; Region: acr3; TIGR00832 395019017523 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395019017524 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395019017525 active site 395019017526 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395019017527 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395019017528 active site 395019017529 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 395019017530 putative DNA binding site [nucleotide binding]; other site 395019017531 putative Zn2+ binding site [ion binding]; other site 395019017532 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 395019017533 dimerization interface [polypeptide binding]; other site 395019017534 putative DNA binding site [nucleotide binding]; other site 395019017535 putative Zn2+ binding site [ion binding]; other site 395019017536 PBP superfamily domain; Region: PBP_like_2; pfam12849 395019017537 Arsenite oxidase (Arsenite-Ox) oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin. Arsenite oxidase is a...; Region: MopB_Arsenite-Ox; cd02756 395019017538 arsenite oxidase, large subunit; Region: arsenite_ox_L; TIGR02693 395019017539 [3Fe-4S] binding site [ion binding]; other site 395019017540 molybdopterin cofactor binding site [chemical binding]; other site 395019017541 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 395019017542 molybdopterin cofactor binding site; other site 395019017543 Small subunit of Arsenite oxidase (ArOX) family, Rieske domain; ArOX is a molybdenum/iron protein involved in the detoxification of arsenic, oxidizing it to arsenate. It consists of two subunits, a large subunit similar to members of the DMSO reductase...; Region: Rieske_ArOX_small; cd03476 395019017544 [2Fe-2S] cluster binding site [ion binding]; other site 395019017545 subunit interaction site [polypeptide binding]; other site 395019017546 Domain of unknown function DUF302; Region: DUF302; pfam03625 395019017547 Cytochrome c553 [Energy production and conversion]; Region: COG2863 395019017548 Cytochrome c; Region: Cytochrom_C; cl11414 395019017549 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 395019017550 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 395019017551 Nitrogen regulatory protein P-II; Region: P-II; cl00412 395019017552 Nitrogen regulatory protein P-II; Region: P-II; smart00938 395019017553 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 395019017554 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 395019017555 HlyD family secretion protein; Region: HlyD_2; pfam12700 395019017556 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019017557 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 395019017558 Outer membrane efflux protein; Region: OEP; pfam02321 395019017559 Outer membrane efflux protein; Region: OEP; pfam02321 395019017560 Transposase domain (DUF772); Region: DUF772; pfam05598 395019017561 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 395019017562 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019017563 toxin ChpB; Provisional; Region: PRK09812 395019017564 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 395019017565 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 395019017566 active site 395019017567 catalytic residues [active] 395019017568 DNA binding site [nucleotide binding] 395019017569 Int/Topo IB signature motif; other site 395019017570 H-NS histone family; Region: Histone_HNS; pfam00816 395019017571 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 395019017572 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 395019017573 Small subunit of Arsenite oxidase (ArOX) family, Rieske domain; ArOX is a molybdenum/iron protein involved in the detoxification of arsenic, oxidizing it to arsenate. It consists of two subunits, a large subunit similar to members of the DMSO reductase...; Region: Rieske_ArOX_small; cd03476 395019017574 [2Fe-2S] cluster binding site [ion binding]; other site 395019017575 subunit interaction site [polypeptide binding]; other site 395019017576 Arsenite oxidase (Arsenite-Ox) oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin. Arsenite oxidase is a...; Region: MopB_Arsenite-Ox; cd02756 395019017577 arsenite oxidase, large subunit; Region: arsenite_ox_L; TIGR02693 395019017578 [3Fe-4S] binding site [ion binding]; other site 395019017579 molybdopterin cofactor binding site [chemical binding]; other site 395019017580 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 395019017581 molybdopterin cofactor binding site; other site 395019017582 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 395019017583 putative DNA binding site [nucleotide binding]; other site 395019017584 putative Zn2+ binding site [ion binding]; other site 395019017585 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_20; cd07254 395019017586 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019017587 putative metal binding site [ion binding]; other site 395019017588 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395019017589 Low molecular weight phosphatase family; Region: LMWPc; cl00105 395019017590 active site 395019017591 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 395019017592 Low molecular weight phosphatase family; Region: LMWPc; cd00115 395019017593 active site 395019017594 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 395019017595 arsenical-resistance protein; Region: acr3; TIGR00832 395019017596 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 395019017597 ArsC family; Region: ArsC; pfam03960 395019017598 catalytic residues [active] 395019017599 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 395019017600 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019017601 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019017602 Coenzyme A binding pocket [chemical binding]; other site 395019017603 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 395019017604 DNA binding site [nucleotide binding] 395019017605 active site 395019017606 Int/Topo IB signature motif; other site 395019017607 Integrase core domain; Region: rve; pfam00665 395019017608 transposase; Validated; Region: PRK08181 395019017609 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 395019017610 Walker A motif; other site 395019017611 ATP binding site [chemical binding]; other site 395019017612 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 395019017613 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 395019017614 active site 395019017615 DNA binding site [nucleotide binding] 395019017616 Int/Topo IB signature motif; other site 395019017617 putative transposase OrfB; Reviewed; Region: PHA02517 395019017618 HTH-like domain; Region: HTH_21; pfam13276 395019017619 Integrase core domain; Region: rve; pfam00665 395019017620 Integrase core domain; Region: rve_3; pfam13683 395019017621 Homeodomain-like domain; Region: HTH_23; pfam13384 395019017622 Winged helix-turn helix; Region: HTH_29; pfam13551 395019017623 Homeodomain-like domain; Region: HTH_32; pfam13565 395019017624 DDE superfamily endonuclease; Region: DDE_3; pfam13358 395019017625 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019017626 MULE transposase domain; Region: MULE; pfam10551 395019017627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 395019017628 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 395019017629 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 395019017630 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 395019017631 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 395019017632 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 395019017633 DNA binding site [nucleotide binding] 395019017634 active site 395019017635 Int/Topo IB signature motif; other site 395019017636 Transposase; Region: HTH_Tnp_1; cl17663 395019017637 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395019017638 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 395019017639 DDE domain; Region: DDE_Tnp_IS240; pfam13610 395019017640 TniQ; Region: TniQ; pfam06527 395019017641 Transposase, Mutator family; Region: Transposase_mut; pfam00872 395019017642 MULE transposase domain; Region: MULE; pfam10551 395019017643 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 395019017644 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395019017645 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 395019017646 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 395019017647 NAD binding site [chemical binding]; other site 395019017648 homotetramer interface [polypeptide binding]; other site 395019017649 homodimer interface [polypeptide binding]; other site 395019017650 substrate binding site [chemical binding]; other site 395019017651 active site 395019017652 propionate/acetate kinase; Provisional; Region: PRK12379 395019017653 Acetokinase family; Region: Acetate_kinase; cl17229 395019017654 phosphate acetyltransferase; Provisional; Region: PRK11890 395019017655 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 395019017656 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 395019017657 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395019017658 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395019017659 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 395019017660 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 395019017661 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 395019017662 Walker A/P-loop; other site 395019017663 ATP binding site [chemical binding]; other site 395019017664 Q-loop/lid; other site 395019017665 ABC transporter signature motif; other site 395019017666 Walker B; other site 395019017667 D-loop; other site 395019017668 H-loop/switch region; other site 395019017669 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019017670 Walker A/P-loop; other site 395019017671 ATP binding site [chemical binding]; other site 395019017672 Q-loop/lid; other site 395019017673 ABC transporter signature motif; other site 395019017674 Walker B; other site 395019017675 D-loop; other site 395019017676 H-loop/switch region; other site 395019017677 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 395019017678 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395019017679 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 395019017680 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019017681 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395019017682 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019017683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019017684 Helix-turn-helix domain; Region: HTH_18; pfam12833 395019017685 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019017686 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 395019017687 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 395019017688 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 395019017689 NAD(P) binding site [chemical binding]; other site 395019017690 homotetramer interface [polypeptide binding]; other site 395019017691 homodimer interface [polypeptide binding]; other site 395019017692 active site 395019017693 Helix-turn-helix domain; Region: HTH_28; pfam13518 395019017694 putative transposase OrfB; Reviewed; Region: PHA02517 395019017695 HTH-like domain; Region: HTH_21; pfam13276 395019017696 Integrase core domain; Region: rve; pfam00665 395019017697 Integrase core domain; Region: rve_2; pfam13333 395019017698 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 395019017699 Cytochrome c553 [Energy production and conversion]; Region: COG2863 395019017700 Cytochrome c; Region: Cytochrom_C; cl11414 395019017701 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 395019017702 Putative D-pathway homolog; other site 395019017703 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 395019017704 Low-spin heme binding site [chemical binding]; other site 395019017705 Subunit I/II interface [polypeptide binding]; other site 395019017706 Putative Q-pathway; other site 395019017707 Putative alternate electron transfer pathway; other site 395019017708 Putative water exit pathway; other site 395019017709 Binuclear center (active site) [active] 395019017710 Putative K-pathway homolog; other site 395019017711 Putative proton exit pathway; other site 395019017712 Subunit I/IIa interface [polypeptide binding]; other site 395019017713 Electron transfer pathway; other site 395019017714 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 395019017715 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 395019017716 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019017717 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 395019017718 Cytochrome c; Region: Cytochrom_C; pfam00034 395019017719 Cytochrome c; Region: Cytochrom_C; cl11414 395019017720 Cytochrome c; Region: Cytochrom_C; cl11414 395019017721 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019017722 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 395019017723 active site 395019017724 phosphorylation site [posttranslational modification] 395019017725 intermolecular recognition site; other site 395019017726 dimerization interface [polypeptide binding]; other site 395019017727 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 395019017728 DNA binding residues [nucleotide binding] 395019017729 dimerization interface [polypeptide binding]; other site 395019017730 H-NS histone family; Region: Histone_HNS; pfam00816 395019017731 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 395019017732 Response regulator receiver domain; Region: Response_reg; pfam00072 395019017733 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 395019017734 active site 395019017735 phosphorylation site [posttranslational modification] 395019017736 intermolecular recognition site; other site 395019017737 dimerization interface [polypeptide binding]; other site 395019017738 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 395019017739 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 395019017740 dinuclear metal binding motif [ion binding]; other site 395019017741 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 395019017742 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 395019017743 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 395019017744 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 395019017745 Integrase core domain; Region: rve; pfam00665 395019017746 Integrase core domain; Region: rve_3; pfam13683 395019017747 AAA ATPase domain; Region: AAA_16; pfam13191 395019017748 AAA domain; Region: AAA_22; pfam13401 395019017749 Integrase core domain; Region: rve; pfam00665 395019017750 Integrase core domain; Region: rve_3; cl15866 395019017751 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 395019017752 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395019017753 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 395019017754 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 395019017755 ATP binding site [chemical binding]; other site 395019017756 putative Mg++ binding site [ion binding]; other site 395019017757 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 395019017758 nucleotide binding region [chemical binding]; other site 395019017759 ATP-binding site [chemical binding]; other site 395019017760 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 395019017761 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 395019017762 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 395019017763 Walker A motif; other site 395019017764 ATP binding site [chemical binding]; other site 395019017765 Walker B motif; other site 395019017766 arginine finger; other site 395019017767 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 395019017768 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 395019017769 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 395019017770 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 395019017771 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 395019017772 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019017773 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019017774 eyelet of channel; other site 395019017775 trimer interface [polypeptide binding]; other site 395019017776 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 395019017777 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 395019017778 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 395019017779 Int/Topo IB signature motif; other site 395019017780 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 395019017781 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 395019017782 hypothetical protein; Provisional; Region: PRK10396 395019017783 yecA family protein; Region: ygfB_yecA; TIGR02292 395019017784 SEC-C motif; Region: SEC-C; pfam02810 395019017785 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 395019017786 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395019017787 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 395019017788 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395019017789 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019017790 DNA-binding site [nucleotide binding]; DNA binding site 395019017791 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 395019017792 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 395019017793 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 395019017794 phosphate binding site [ion binding]; other site 395019017795 L-lactate permease; Region: Lactate_perm; cl00701 395019017796 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 395019017797 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019017798 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019017799 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019017800 dimerization interface [polypeptide binding]; other site 395019017801 substrate binding pocket [chemical binding]; other site 395019017802 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 395019017803 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 395019017804 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 395019017805 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019017806 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 395019017807 Paraquat-inducible protein A; Region: PqiA; pfam04403 395019017808 Paraquat-inducible protein A; Region: PqiA; pfam04403 395019017809 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 395019017810 mce related protein; Region: MCE; pfam02470 395019017811 mce related protein; Region: MCE; pfam02470 395019017812 mce related protein; Region: MCE; pfam02470 395019017813 Protein of unknown function (DUF330); Region: DUF330; pfam03886 395019017814 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019017815 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019017816 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 395019017817 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 395019017818 N-terminal domain of 2,4,5-trihydroxytoluene (THT) oxygenase; Region: THT_Oxygenase_N; cd07267 395019017819 The C-terminal domain of 2,4,5-Trihydroxytoluene (THT) oxygenase, which is an extradiol dioxygenease in the 2,4-dinitrotoluene (DNT) degradation pathway; Region: THT_oxygenase_C; cd07257 395019017820 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019017821 putative active site [active] 395019017822 putative metal binding site [ion binding]; other site 395019017823 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 395019017824 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 395019017825 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395019017826 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395019017827 acyl-activating enzyme (AAE) consensus motif; other site 395019017828 active site 395019017829 AMP binding site [chemical binding]; other site 395019017830 CoA binding site [chemical binding]; other site 395019017831 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 395019017832 Transposase; Region: DEDD_Tnp_IS110; pfam01548 395019017833 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 395019017834 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 395019017835 CoA binding site [chemical binding]; other site 395019017836 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 395019017837 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019017838 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019017839 two-component response regulator VirG; Provisional; Region: PRK13856 395019017840 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 395019017841 active site 395019017842 phosphorylation site [posttranslational modification] 395019017843 intermolecular recognition site; other site 395019017844 dimerization interface [polypeptide binding]; other site 395019017845 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 395019017846 DNA binding site [nucleotide binding] 395019017847 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 395019017848 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 395019017849 putative active site [active] 395019017850 heme pocket [chemical binding]; other site 395019017851 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 395019017852 dimer interface [polypeptide binding]; other site 395019017853 phosphorylation site [posttranslational modification] 395019017854 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 395019017855 ATP binding site [chemical binding]; other site 395019017856 Mg2+ binding site [ion binding]; other site 395019017857 G-X-G motif; other site 395019017858 Response regulator receiver domain; Region: Response_reg; pfam00072 395019017859 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 395019017860 active site 395019017861 phosphorylation site [posttranslational modification] 395019017862 intermolecular recognition site; other site 395019017863 dimerization interface [polypeptide binding]; other site 395019017864 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 395019017865 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 395019017866 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 395019017867 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 395019017868 Cysteine-rich domain; Region: CCG; pfam02754 395019017869 Cysteine-rich domain; Region: CCG; pfam02754 395019017870 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 395019017871 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 395019017872 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 395019017873 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 395019017874 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 395019017875 Protein of unknown function (DUF330); Region: DUF330; pfam03886 395019017876 Vitamin K epoxide reductase (VKOR) family; Region: VKOR; cl01729 395019017877 mce related protein; Region: MCE; pfam02470 395019017878 mce related protein; Region: MCE; pfam02470 395019017879 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 395019017880 Paraquat-inducible protein A; Region: PqiA; pfam04403 395019017881 Paraquat-inducible protein A; Region: PqiA; pfam04403 395019017882 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 395019017883 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 395019017884 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 395019017885 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 395019017886 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 395019017887 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 395019017888 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395019017889 hydroxyglutarate oxidase; Provisional; Region: PRK11728 395019017890 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 395019017891 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 395019017892 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 395019017893 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 395019017894 S-adenosylmethionine binding site [chemical binding]; other site 395019017895 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 395019017896 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 395019017897 GTP cyclohydrolase I; Provisional; Region: PLN03044 395019017898 active site 395019017899 RNA polymerase sigma factor; Provisional; Region: PRK12514 395019017900 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019017901 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 395019017902 DNA binding residues [nucleotide binding] 395019017903 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 395019017904 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 395019017905 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 395019017906 L-aspartate oxidase; Provisional; Region: PRK06175 395019017907 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 395019017908 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 395019017909 SdhC subunit interface [polypeptide binding]; other site 395019017910 proximal heme binding site [chemical binding]; other site 395019017911 cardiolipin binding site; other site 395019017912 Iron-sulfur protein interface; other site 395019017913 proximal quinone binding site [chemical binding]; other site 395019017914 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 395019017915 Iron-sulfur protein interface; other site 395019017916 proximal quinone binding site [chemical binding]; other site 395019017917 SdhD (CybS) interface [polypeptide binding]; other site 395019017918 proximal heme binding site [chemical binding]; other site 395019017919 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 395019017920 classical (c) SDRs; Region: SDR_c; cd05233 395019017921 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 395019017922 NAD(P) binding site [chemical binding]; other site 395019017923 active site 395019017924 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 395019017925 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 395019017926 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 395019017927 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 395019017928 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 395019017929 DNA binding residues [nucleotide binding] 395019017930 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 395019017931 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395019017932 substrate binding pocket [chemical binding]; other site 395019017933 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 395019017934 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 395019017935 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 395019017936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 395019017937 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 395019017938 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 395019017939 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 395019017940 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019017941 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019017942 LysR substrate binding domain; Region: LysR_substrate; pfam03466 395019017943 dimerization interface [polypeptide binding]; other site 395019017944 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 395019017945 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 395019017946 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 395019017947 Ligand Binding Site [chemical binding]; other site 395019017948 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 395019017949 Ligand Binding Site [chemical binding]; other site 395019017950 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 395019017951 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 395019017952 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 395019017953 sensor protein QseC; Provisional; Region: PRK10337 395019017954 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 395019017955 ATP binding site [chemical binding]; other site 395019017956 Mg2+ binding site [ion binding]; other site 395019017957 G-X-G motif; other site 395019017958 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 395019017959 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 395019017960 active site 395019017961 phosphorylation site [posttranslational modification] 395019017962 intermolecular recognition site; other site 395019017963 dimerization interface [polypeptide binding]; other site 395019017964 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 395019017965 DNA binding site [nucleotide binding] 395019017966 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 395019017967 Dihaem cytochrome c; Region: DHC; pfam09626 395019017968 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 395019017969 Beta-lactamase; Region: Beta-lactamase; pfam00144 395019017970 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395019017971 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 395019017972 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 395019017973 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 395019017974 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 395019017975 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 395019017976 putative active site [active] 395019017977 putative metal binding site [ion binding]; other site 395019017978 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 395019017979 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 395019017980 putative substrate binding site [chemical binding]; other site 395019017981 putative ATP binding site [chemical binding]; other site 395019017982 ribonucleotide reductase-like protein; Provisional; Region: PRK06948 395019017983 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 395019017984 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 395019017985 active site 395019017986 dimer interface [polypeptide binding]; other site 395019017987 effector binding site; other site 395019017988 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 395019017989 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 395019017990 Walker A motif; other site 395019017991 ATP binding site [chemical binding]; other site 395019017992 Walker B motif; other site 395019017993 arginine finger; other site 395019017994 Peptidase family M41; Region: Peptidase_M41; pfam01434 395019017995 BON domain; Region: BON; pfam04972 395019017996 BON domain; Region: BON; pfam04972 395019017997 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 395019017998 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 395019017999 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019018000 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019018001 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395019018002 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 395019018003 Walker A/P-loop; other site 395019018004 ATP binding site [chemical binding]; other site 395019018005 Q-loop/lid; other site 395019018006 ABC transporter signature motif; other site 395019018007 Walker B; other site 395019018008 D-loop; other site 395019018009 H-loop/switch region; other site 395019018010 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 395019018011 Walker A/P-loop; other site 395019018012 ATP binding site [chemical binding]; other site 395019018013 Q-loop/lid; other site 395019018014 ABC transporter signature motif; other site 395019018015 Walker B; other site 395019018016 D-loop; other site 395019018017 H-loop/switch region; other site 395019018018 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395019018019 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 395019018020 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 395019018021 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 395019018022 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 395019018023 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 395019018024 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 395019018025 FtsX-like permease family; Region: FtsX; pfam02687 395019018026 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 395019018027 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 395019018028 Walker A/P-loop; other site 395019018029 ATP binding site [chemical binding]; other site 395019018030 Q-loop/lid; other site 395019018031 ABC transporter signature motif; other site 395019018032 Walker B; other site 395019018033 D-loop; other site 395019018034 H-loop/switch region; other site 395019018035 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 395019018036 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019018037 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019018038 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 395019018039 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 395019018040 Beta-Casp domain; Region: Beta-Casp; pfam10996 395019018041 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 395019018042 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 395019018043 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 395019018044 catalytic Zn binding site [ion binding]; other site 395019018045 structural Zn binding site [ion binding]; other site 395019018046 NAD(P) binding site [chemical binding]; other site 395019018047 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 395019018048 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 395019018049 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 395019018050 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 395019018051 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 395019018052 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 395019018053 NAD(P) binding site [chemical binding]; other site 395019018054 homotetramer interface [polypeptide binding]; other site 395019018055 homodimer interface [polypeptide binding]; other site 395019018056 active site 395019018057 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 395019018058 Ligand Binding Site [chemical binding]; other site 395019018059 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 395019018060 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 395019018061 Ligand Binding Site [chemical binding]; other site 395019018062 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 395019018063 Ligand Binding Site [chemical binding]; other site 395019018064 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 395019018065 Ligand Binding Site [chemical binding]; other site 395019018066 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 395019018067 Ligand Binding Site [chemical binding]; other site 395019018068 CHASE domain; Region: CHASE; cl01369 395019018069 PAS domain S-box; Region: sensory_box; TIGR00229 395019018070 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 395019018071 putative active site [active] 395019018072 heme pocket [chemical binding]; other site 395019018073 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 395019018074 Histidine kinase; Region: HisKA_3; pfam07730 395019018075 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 395019018076 ATP binding site [chemical binding]; other site 395019018077 Mg2+ binding site [ion binding]; other site 395019018078 G-X-G motif; other site 395019018079 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019018080 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 395019018081 active site 395019018082 phosphorylation site [posttranslational modification] 395019018083 intermolecular recognition site; other site 395019018084 dimerization interface [polypeptide binding]; other site 395019018085 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 395019018086 DNA binding residues [nucleotide binding] 395019018087 dimerization interface [polypeptide binding]; other site 395019018088 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 395019018089 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 395019018090 ligand binding site [chemical binding]; other site 395019018091 flexible hinge region; other site 395019018092 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 395019018093 putative switch regulator; other site 395019018094 non-specific DNA interactions [nucleotide binding]; other site 395019018095 DNA binding site [nucleotide binding] 395019018096 sequence specific DNA binding site [nucleotide binding]; other site 395019018097 putative cAMP binding site [chemical binding]; other site 395019018098 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 395019018099 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 395019018100 putative NAD(P) binding site [chemical binding]; other site 395019018101 putative substrate binding site [chemical binding]; other site 395019018102 catalytic Zn binding site [ion binding]; other site 395019018103 structural Zn binding site [ion binding]; other site 395019018104 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 395019018105 FMN binding site [chemical binding]; other site 395019018106 dimer interface [polypeptide binding]; other site 395019018107 Cytochrome c; Region: Cytochrom_C; cl11414 395019018108 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 395019018109 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 395019018110 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 395019018111 Sulfate transporter family; Region: Sulfate_transp; pfam00916 395019018112 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 395019018113 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 395019018114 BON domain; Region: BON; pfam04972 395019018115 BON domain; Region: BON; pfam04972 395019018116 BON domain; Region: BON; pfam04972 395019018117 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 395019018118 putative FMN binding site [chemical binding]; other site 395019018119 NADPH bind site [chemical binding]; other site 395019018120 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 395019018121 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 395019018122 putative dimer interface [polypeptide binding]; other site 395019018123 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 395019018124 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 395019018125 Ligand Binding Site [chemical binding]; other site 395019018126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 395019018127 AAA domain; Region: AAA_33; pfam13671 395019018128 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 395019018129 active site 395019018130 FOG: CBS domain [General function prediction only]; Region: COG0517 395019018131 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_9; cd04622 395019018132 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 395019018133 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395019018134 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395019018135 Walker A/P-loop; other site 395019018136 ATP binding site [chemical binding]; other site 395019018137 Q-loop/lid; other site 395019018138 ABC transporter signature motif; other site 395019018139 Walker B; other site 395019018140 D-loop; other site 395019018141 H-loop/switch region; other site 395019018142 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 395019018143 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 395019018144 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 395019018145 dimer interface [polypeptide binding]; other site 395019018146 conserved gate region; other site 395019018147 putative PBP binding loops; other site 395019018148 ABC-ATPase subunit interface; other site 395019018149 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 395019018150 dimer interface [polypeptide binding]; other site 395019018151 conserved gate region; other site 395019018152 putative PBP binding loops; other site 395019018153 ABC-ATPase subunit interface; other site 395019018154 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 395019018155 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 395019018156 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 395019018157 active site 395019018158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 395019018159 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 395019018160 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 395019018161 active site 395019018162 FOG: CBS domain [General function prediction only]; Region: COG0517 395019018163 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_9; cd04622 395019018164 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 395019018165 BON domain; Region: BON; pfam04972 395019018166 BON domain; Region: BON; pfam04972 395019018167 BON domain; Region: BON; pfam04972 395019018168 GYD domain; Region: GYD; cl01743 395019018169 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 395019018170 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 395019018171 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 395019018172 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 395019018173 active site 395019018174 nucleophile elbow; other site 395019018175 Patatin phospholipase; Region: DUF3734; pfam12536 395019018176 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 395019018177 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 395019018178 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 395019018179 phosphoenolpyruvate synthase; Validated; Region: PRK06464 395019018180 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 395019018181 Phosphohistidine swiveling domain [Signal transduction mechanisms]; Region: COG3848 395019018182 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 395019018183 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 395019018184 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 395019018185 active site 395019018186 metal binding site [ion binding]; metal-binding site 395019018187 nudix motif; other site 395019018188 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 395019018189 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 395019018190 TPP-binding site; other site 395019018191 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 395019018192 PYR/PP interface [polypeptide binding]; other site 395019018193 dimer interface [polypeptide binding]; other site 395019018194 TPP binding site [chemical binding]; other site 395019018195 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 395019018196 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 395019018197 S-adenosylmethionine binding site [chemical binding]; other site 395019018198 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 395019018199 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 395019018200 substrate binding pocket [chemical binding]; other site 395019018201 substrate-Mg2+ binding site; other site 395019018202 aspartate-rich region 1; other site 395019018203 aspartate-rich region 2; other site 395019018204 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 395019018205 S-adenosylmethionine binding site [chemical binding]; other site 395019018206 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395019018207 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395019018208 [2Fe-2S] cluster binding site [ion binding]; other site 395019018209 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 395019018210 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 395019018211 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 395019018212 Cytochrome P450; Region: p450; cl12078 395019018213 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395019018214 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 395019018215 iron-sulfur cluster [ion binding]; other site 395019018216 [2Fe-2S] cluster binding site [ion binding]; other site 395019018217 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 395019018218 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 395019018219 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 395019018220 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 395019018221 putative arabinose transporter; Provisional; Region: PRK03545 395019018222 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 395019018223 putative substrate translocation pore; other site 395019018224 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 395019018225 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019018226 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 395019018227 putative substrate translocation pore; other site 395019018228 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 395019018229 Cytochrome P450; Region: p450; cl12078 395019018230 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395019018231 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 395019018232 FMN-binding pocket [chemical binding]; other site 395019018233 flavin binding motif; other site 395019018234 phosphate binding motif [ion binding]; other site 395019018235 beta-alpha-beta structure motif; other site 395019018236 NAD binding pocket [chemical binding]; other site 395019018237 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 395019018238 catalytic loop [active] 395019018239 iron binding site [ion binding]; other site 395019018240 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019018241 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 395019018242 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019018243 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019018244 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019018245 TM-ABC transporter signature motif; other site 395019018246 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 395019018247 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 395019018248 TM-ABC transporter signature motif; other site 395019018249 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 395019018250 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 395019018251 Walker A/P-loop; other site 395019018252 ATP binding site [chemical binding]; other site 395019018253 Q-loop/lid; other site 395019018254 ABC transporter signature motif; other site 395019018255 Walker B; other site 395019018256 D-loop; other site 395019018257 H-loop/switch region; other site 395019018258 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 395019018259 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 395019018260 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 395019018261 putative ligand binding site [chemical binding]; other site 395019018262 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 395019018263 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 395019018264 active site 395019018265 DNA binding site [nucleotide binding] 395019018266 Int/Topo IB signature motif; other site 395019018267 catalytic residues [active] 395019018268 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 395019018269 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 395019018270 FeS/SAM binding site; other site 395019018271 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 395019018272 coenzyme PQQ biosynthesis protein PqqD; Region: PQQ_PqqD; TIGR03859 395019018273 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 395019018274 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 395019018275 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 395019018276 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 395019018277 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 395019018278 Walker A motif; other site 395019018279 ATP binding site [chemical binding]; other site 395019018280 Walker B motif; other site 395019018281 arginine finger; other site 395019018282 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 395019018283 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 395019018284 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 395019018285 N-terminal plug; other site 395019018286 ligand-binding site [chemical binding]; other site 395019018287 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 395019018288 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 395019018289 dimer interface [polypeptide binding]; other site 395019018290 Trp docking motif [polypeptide binding]; other site 395019018291 active site 395019018292 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 395019018293 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 395019018294 membrane-bound complex binding site; other site 395019018295 hinge residues; other site 395019018296 Cytochrome c; Region: Cytochrom_C; pfam00034 395019018297 High potential iron-sulfur protein; Region: HIPIP; pfam01355 395019018298 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 395019018299 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 395019018300 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 395019018301 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 395019018302 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 395019018303 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 395019018304 DNA binding residues [nucleotide binding] 395019018305 acetyl-CoA synthetase; Provisional; Region: PRK00174 395019018306 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 395019018307 active site 395019018308 CoA binding site [chemical binding]; other site 395019018309 acyl-activating enzyme (AAE) consensus motif; other site 395019018310 AMP binding site [chemical binding]; other site 395019018311 acetate binding site [chemical binding]; other site 395019018312 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019018313 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019018314 trimer interface [polypeptide binding]; other site 395019018315 eyelet of channel; other site 395019018316 proline/glycine betaine transporter; Provisional; Region: PRK10642 395019018317 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 395019018318 putative substrate translocation pore; other site 395019018319 DctM-like transporters; Region: DctM; pfam06808 395019018320 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 395019018321 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 395019018322 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 395019018323 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 395019018324 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 395019018325 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 395019018326 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]; Region: COG1107 395019018327 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395019018328 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019018329 DNA-binding site [nucleotide binding]; DNA binding site 395019018330 FCD domain; Region: FCD; pfam07729 395019018331 metabolite-proton symporter; Region: 2A0106; TIGR00883 395019018332 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 395019018333 putative substrate translocation pore; other site 395019018334 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 395019018335 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 395019018336 inhibitor site; inhibition site 395019018337 active site 395019018338 dimer interface [polypeptide binding]; other site 395019018339 catalytic residue [active] 395019018340 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 395019018341 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 395019018342 DNA binding residues [nucleotide binding] 395019018343 dimerization interface [polypeptide binding]; other site 395019018344 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019018345 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019018346 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 395019018347 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 395019018348 Active site cavity [active] 395019018349 catalytic acid [active] 395019018350 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 395019018351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019018352 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 395019018353 putative dimerization interface [polypeptide binding]; other site 395019018354 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019018355 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 395019018356 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 395019018357 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 395019018358 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 395019018359 substrate binding pocket [chemical binding]; other site 395019018360 membrane-bound complex binding site; other site 395019018361 hinge residues; other site 395019018362 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 395019018363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019018364 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 395019018365 putative dimerization interface [polypeptide binding]; other site 395019018366 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395019018367 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 395019018368 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395019018369 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019018370 Walker A/P-loop; other site 395019018371 ATP binding site [chemical binding]; other site 395019018372 Q-loop/lid; other site 395019018373 ABC transporter signature motif; other site 395019018374 Walker B; other site 395019018375 D-loop; other site 395019018376 H-loop/switch region; other site 395019018377 TOBE domain; Region: TOBE_2; pfam08402 395019018378 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 395019018379 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 395019018380 dimer interface [polypeptide binding]; other site 395019018381 conserved gate region; other site 395019018382 putative PBP binding loops; other site 395019018383 ABC-ATPase subunit interface; other site 395019018384 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395019018385 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 395019018386 dimer interface [polypeptide binding]; other site 395019018387 conserved gate region; other site 395019018388 putative PBP binding loops; other site 395019018389 ABC-ATPase subunit interface; other site 395019018390 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019018391 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 395019018392 hydroxyglutarate oxidase; Provisional; Region: PRK11728 395019018393 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 395019018394 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 395019018395 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 395019018396 hydroxyglutarate oxidase; Provisional; Region: PRK11728 395019018397 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 395019018398 homotrimer interaction site [polypeptide binding]; other site 395019018399 putative active site [active] 395019018400 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 395019018401 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 395019018402 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 395019018403 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 395019018404 Uncharacterized conserved protein [Function unknown]; Region: COG5476 395019018405 MlrC C-terminus; Region: MlrC_C; pfam07171 395019018406 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 395019018407 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 395019018408 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019018409 NAD binding site [chemical binding]; other site 395019018410 catalytic residues [active] 395019018411 hypothetical protein; Provisional; Region: PRK06541 395019018412 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 395019018413 inhibitor-cofactor binding pocket; inhibition site 395019018414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019018415 catalytic residue [active] 395019018416 amino acid transporter; Region: 2A0306; TIGR00909 395019018417 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 395019018418 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 395019018419 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019018420 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019018421 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019018422 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 395019018423 putative effector binding pocket; other site 395019018424 putative dimerization interface [polypeptide binding]; other site 395019018425 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 395019018426 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 395019018427 Na binding site [ion binding]; other site 395019018428 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 395019018429 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 395019018430 [2Fe-2S] cluster binding site [ion binding]; other site 395019018431 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 395019018432 putative alpha subunit interface [polypeptide binding]; other site 395019018433 putative active site [active] 395019018434 putative substrate binding site [chemical binding]; other site 395019018435 Fe binding site [ion binding]; other site 395019018436 succinic semialdehyde dehydrogenase; Region: PLN02278 395019018437 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395019018438 tetramerization interface [polypeptide binding]; other site 395019018439 NAD(P) binding site [chemical binding]; other site 395019018440 catalytic residues [active] 395019018441 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 395019018442 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 395019018443 FMN-binding pocket [chemical binding]; other site 395019018444 flavin binding motif; other site 395019018445 phosphate binding motif [ion binding]; other site 395019018446 beta-alpha-beta structure motif; other site 395019018447 NAD binding pocket [chemical binding]; other site 395019018448 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 395019018449 catalytic loop [active] 395019018450 iron binding site [ion binding]; other site 395019018451 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 395019018452 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 395019018453 non-specific DNA binding site [nucleotide binding]; other site 395019018454 salt bridge; other site 395019018455 sequence-specific DNA binding site [nucleotide binding]; other site 395019018456 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 395019018457 putative active site [active] 395019018458 PAS fold; Region: PAS_3; pfam08447 395019018459 heme pocket [chemical binding]; other site 395019018460 PAS fold; Region: PAS_3; pfam08447 395019018461 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 395019018462 putative active site [active] 395019018463 heme pocket [chemical binding]; other site 395019018464 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 395019018465 tartrate dehydrogenase; Region: TTC; TIGR02089 395019018466 Transcriptional regulators [Transcription]; Region: MarR; COG1846 395019018467 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 395019018468 putative DNA binding site [nucleotide binding]; other site 395019018469 putative Zn2+ binding site [ion binding]; other site 395019018470 MarR family; Region: MarR_2; cl17246 395019018471 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 395019018472 Coenzyme A binding pocket [chemical binding]; other site 395019018473 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019018474 trimer interface [polypeptide binding]; other site 395019018475 eyelet of channel; other site 395019018476 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019018477 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019018478 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019018479 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 395019018480 putative dimerization interface [polypeptide binding]; other site 395019018481 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 395019018482 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 395019018483 active site 395019018484 putative substrate binding pocket [chemical binding]; other site 395019018485 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 395019018486 D-galactonate transporter; Region: 2A0114; TIGR00893 395019018487 putative substrate translocation pore; other site 395019018488 amidase; Provisional; Region: PRK09201 395019018489 Amidase; Region: Amidase; cl11426 395019018490 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 395019018491 Transcriptional regulator [Transcription]; Region: IclR; COG1414 395019018492 Bacterial transcriptional regulator; Region: IclR; pfam01614 395019018493 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 395019018494 D-galactonate transporter; Region: 2A0114; TIGR00893 395019018495 putative substrate translocation pore; other site 395019018496 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019018497 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019018498 trimer interface [polypeptide binding]; other site 395019018499 eyelet of channel; other site 395019018500 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019018501 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019018502 trimer interface [polypeptide binding]; other site 395019018503 eyelet of channel; other site 395019018504 Tannase and feruloyl esterase; Region: Tannase; pfam07519 395019018505 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 395019018506 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 395019018507 hypothetical protein; Provisional; Region: PRK09262 395019018508 hypothetical protein; Validated; Region: PRK06201 395019018509 Amidohydrolase; Region: Amidohydro_2; pfam04909 395019018510 benzoate transport; Region: 2A0115; TIGR00895 395019018511 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 395019018512 putative substrate translocation pore; other site 395019018513 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 395019018514 protocatechuate 4,5-dioxygenase; Provisional; Region: PRK13367 395019018515 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 395019018516 putative active site [active] 395019018517 Fe(II) binding site [ion binding]; other site 395019018518 putative dimer interface [polypeptide binding]; other site 395019018519 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 395019018520 putative dimer interface [polypeptide binding]; other site 395019018521 putative N- and C-terminal domain interface [polypeptide binding]; other site 395019018522 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019018523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019018524 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 395019018525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019018526 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 395019018527 putative dimerization interface [polypeptide binding]; other site 395019018528 benzoate transport; Region: 2A0115; TIGR00895 395019018529 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 395019018530 putative substrate translocation pore; other site 395019018531 H-NS histone family; Region: Histone_HNS; pfam00816 395019018532 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 395019018533 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 395019018534 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 395019018535 NADP binding site [chemical binding]; other site 395019018536 active site 395019018537 putative substrate binding site [chemical binding]; other site 395019018538 Predicted membrane protein [Function unknown]; Region: COG2259 395019018539 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 395019018540 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 395019018541 putative PBP binding loops; other site 395019018542 dimer interface [polypeptide binding]; other site 395019018543 ABC-ATPase subunit interface; other site 395019018544 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 395019018545 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 395019018546 Walker A/P-loop; other site 395019018547 ATP binding site [chemical binding]; other site 395019018548 Q-loop/lid; other site 395019018549 ABC transporter signature motif; other site 395019018550 Walker B; other site 395019018551 D-loop; other site 395019018552 H-loop/switch region; other site 395019018553 NMT1-like family; Region: NMT1_2; pfam13379 395019018554 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 395019018555 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 395019018556 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 395019018557 active site 395019018558 iron coordination sites [ion binding]; other site 395019018559 substrate binding pocket [chemical binding]; other site 395019018560 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 395019018561 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 395019018562 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 395019018563 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 395019018564 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 395019018565 active site 395019018566 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395019018567 Na binding site [ion binding]; other site 395019018568 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 395019018569 LysR family transcriptional regulator; Provisional; Region: PRK14997 395019018570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019018571 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 395019018572 putative effector binding pocket; other site 395019018573 dimerization interface [polypeptide binding]; other site 395019018574 Pirin-related protein [General function prediction only]; Region: COG1741 395019018575 Pirin; Region: Pirin; pfam02678 395019018576 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 395019018577 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019018578 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 395019018579 LrgA family; Region: LrgA; pfam03788 395019018580 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395019018581 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 395019018582 active site 395019018583 dimer interface [polypeptide binding]; other site 395019018584 metal binding site [ion binding]; metal-binding site 395019018585 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 395019018586 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 395019018587 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 395019018588 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019018589 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019018590 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 395019018591 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 395019018592 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019018593 Walker A/P-loop; other site 395019018594 ATP binding site [chemical binding]; other site 395019018595 Q-loop/lid; other site 395019018596 ABC transporter signature motif; other site 395019018597 Walker B; other site 395019018598 D-loop; other site 395019018599 H-loop/switch region; other site 395019018600 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019018601 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019018602 trimer interface [polypeptide binding]; other site 395019018603 eyelet of channel; other site 395019018604 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 395019018605 iron-sulfur cluster [ion binding]; other site 395019018606 [2Fe-2S] cluster binding site [ion binding]; other site 395019018607 YciI-like protein; Reviewed; Region: PRK12863 395019018608 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 395019018609 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 395019018610 dimer interface [polypeptide binding]; other site 395019018611 active site 395019018612 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 395019018613 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 395019018614 active site 395019018615 dimer interface [polypeptide binding]; other site 395019018616 metal binding site [ion binding]; metal-binding site 395019018617 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019018618 Pseudomonas fluorescens 4-hydroxymuconic semialdehyde dehydrogenase-like; Region: ALDH_HMSADH_HapE; cd07115 395019018619 NAD(P) binding site [chemical binding]; other site 395019018620 catalytic residues [active] 395019018621 3-hydroxyanthranilic acid dioxygenase; Region: 3-HAO; cl17399 395019018622 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019018623 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019018624 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 395019018625 putative effector binding pocket; other site 395019018626 dimerization interface [polypeptide binding]; other site 395019018627 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019018628 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 395019018629 putative substrate translocation pore; other site 395019018630 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 395019018631 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 395019018632 trimer interface [polypeptide binding]; other site 395019018633 eyelet of channel; other site 395019018634 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 395019018635 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 395019018636 dimerization interface [polypeptide binding]; other site 395019018637 ligand binding site [chemical binding]; other site 395019018638 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 395019018639 FAD binding domain; Region: FAD_binding_4; pfam01565 395019018640 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 395019018641 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 395019018642 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019018643 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 395019018644 dimerization interface [polypeptide binding]; other site 395019018645 substrate binding pocket [chemical binding]; other site 395019018646 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 395019018647 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 395019018648 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 395019018649 PAAR motif; Region: PAAR_motif; pfam05488 395019018650 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 395019018651 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 395019018652 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 395019018653 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 395019018654 RHS Repeat; Region: RHS_repeat; cl11982 395019018655 RHS Repeat; Region: RHS_repeat; cl11982 395019018656 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 395019018657 RHS protein; Region: RHS; pfam03527 395019018658 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 395019018659 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 395019018660 Domain of unknown function (DUF1795); Region: DUF1795; pfam08786 395019018661 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 395019018662 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 395019018663 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 395019018664 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 395019018665 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 395019018666 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 395019018667 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 395019018668 dimer interface [polypeptide binding]; other site 395019018669 putative CheW interface [polypeptide binding]; other site 395019018670 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 395019018671 DNA binding residues [nucleotide binding] 395019018672 dimerization interface [polypeptide binding]; other site 395019018673 Phosphoesterase family; Region: Phosphoesterase; pfam04185 395019018674 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 395019018675 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 395019018676 conserved cys residue [active] 395019018677 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 395019018678 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 395019018679 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 395019018680 putative substrate translocation pore; other site 395019018681 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 395019018682 Uncharacterized conserved protein [Function unknown]; Region: COG2128 395019018683 Cupin domain; Region: Cupin_2; cl17218 395019018684 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019018685 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_10; cd07251 395019018686 short chain dehydrogenase; Provisional; Region: PRK06180 395019018687 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 395019018688 NADP binding site [chemical binding]; other site 395019018689 active site 395019018690 steroid binding site; other site 395019018691 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019018692 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019018693 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 395019018694 putative effector binding pocket; other site 395019018695 dimerization interface [polypeptide binding]; other site 395019018696 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 395019018697 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 395019018698 active site 395019018699 dimer interface [polypeptide binding]; other site 395019018700 non-prolyl cis peptide bond; other site 395019018701 insertion regions; other site 395019018702 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 395019018703 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019018704 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 395019018705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 395019018706 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 395019018707 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 395019018708 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 395019018709 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 395019018710 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 395019018711 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019018712 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 395019018713 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg3; cd01282 395019018714 DNA binding residues [nucleotide binding] 395019018715 putative dimer interface [polypeptide binding]; other site 395019018716 Transcriptional regulators [Transcription]; Region: GntR; COG1802 395019018717 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019018718 DNA-binding site [nucleotide binding]; DNA binding site 395019018719 FCD domain; Region: FCD; pfam07729 395019018720 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 395019018721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 395019018722 Walker A/P-loop; other site 395019018723 ATP binding site [chemical binding]; other site 395019018724 Q-loop/lid; other site 395019018725 ABC transporter signature motif; other site 395019018726 Walker B; other site 395019018727 D-loop; other site 395019018728 H-loop/switch region; other site 395019018729 TOBE domain; Region: TOBE_2; pfam08402 395019018730 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 395019018731 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 395019018732 dimer interface [polypeptide binding]; other site 395019018733 conserved gate region; other site 395019018734 putative PBP binding loops; other site 395019018735 ABC-ATPase subunit interface; other site 395019018736 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 395019018737 dimer interface [polypeptide binding]; other site 395019018738 conserved gate region; other site 395019018739 putative PBP binding loops; other site 395019018740 ABC-ATPase subunit interface; other site 395019018741 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 395019018742 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 395019018743 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 395019018744 Transcriptional regulators [Transcription]; Region: FadR; COG2186 395019018745 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019018746 DNA-binding site [nucleotide binding]; DNA binding site 395019018747 FCD domain; Region: FCD; pfam07729 395019018748 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 395019018749 Amino acid synthesis; Region: AA_synth; pfam06684 395019018750 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 395019018751 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 395019018752 TAP-like protein; Region: Abhydrolase_4; pfam08386 395019018753 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 395019018754 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 395019018755 nudix motif; other site 395019018756 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 395019018757 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 395019018758 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 395019018759 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 395019018760 NAD(P) binding site [chemical binding]; other site 395019018761 catalytic residues [active] 395019018762 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 395019018763 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 395019018764 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 395019018765 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019018766 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019018767 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 395019018768 substrate binding pocket [chemical binding]; other site 395019018769 dimerization interface [polypeptide binding]; other site 395019018770 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 395019018771 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 395019018772 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 395019018773 shikimate binding site; other site 395019018774 NAD(P) binding site [chemical binding]; other site 395019018775 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 395019018776 CoA-transferase family III; Region: CoA_transf_3; pfam02515 395019018777 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 395019018778 active site 395019018779 catalytic site [active] 395019018780 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 395019018781 active site 395019018782 metal binding site [ion binding]; metal-binding site 395019018783 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 395019018784 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 395019018785 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 395019018786 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 395019018787 citrate-proton symporter; Provisional; Region: PRK15075 395019018788 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 395019018789 putative substrate translocation pore; other site 395019018790 tricarballylate utilization protein B; Provisional; Region: PRK15033 395019018791 tricarballylate dehydrogenase; Validated; Region: PRK08274 395019018792 Transcriptional regulator [Transcription]; Region: LysR; COG0583 395019018793 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 395019018794 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 395019018795 putative dimerization interface [polypeptide binding]; other site 395019018796 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 395019018797 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 395019018798 Walker A motif; other site 395019018799 ATP binding site [chemical binding]; other site 395019018800 Walker B motif; other site 395019018801 arginine finger; other site 395019018802 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 395019018803 dihydroxyacetone kinase; Provisional; Region: PRK14479 395019018804 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 395019018805 DAK2 domain; Region: Dak2; pfam02734 395019018806 hypothetical protein; Provisional; Region: PRK07482 395019018807 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 395019018808 inhibitor-cofactor binding pocket; inhibition site 395019018809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019018810 catalytic residue [active] 395019018811 succinic semialdehyde dehydrogenase; Region: PLN02278 395019018812 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 395019018813 tetramerization interface [polypeptide binding]; other site 395019018814 NAD(P) binding site [chemical binding]; other site 395019018815 catalytic residues [active] 395019018816 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 395019018817 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 395019018818 putative active site [active] 395019018819 Zn binding site [ion binding]; other site 395019018820 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 395019018821 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 395019018822 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 395019018823 active site 395019018824 ectoine utilization protein EutC; Validated; Region: PRK08291 395019018825 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 395019018826 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 395019018827 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 395019018828 tetramer interface [polypeptide binding]; other site 395019018829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019018830 catalytic residue [active] 395019018831 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 395019018832 DNA-binding site [nucleotide binding]; DNA binding site 395019018833 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 395019018834 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 395019018835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 395019018836 homodimer interface [polypeptide binding]; other site 395019018837 catalytic residue [active] 395019018838 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 395019018839 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 395019018840 Fusaric acid resistance protein family; Region: FUSC; pfam04632 395019018841 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 395019018842 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 395019018843 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 395019018844 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 395019018845 HlyD family secretion protein; Region: HlyD_3; pfam13437 395019018846 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 395019018847 Transcriptional regulator; Region: Rrf2; cl17282 395019018848 TOBE domain; Region: TOBE; cl01440 395019018849 TOBE domain; Region: TOBE; cl01440 395019018850 NifQ; Region: NifQ; pfam04891 395019018851 BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins; Region: BLMT_like; cd08350 395019018852 dimer interface [polypeptide binding]; other site 395019018853 ligand binding site [chemical binding]; other site 395019018854 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 395019018855 ProQ/FINO family; Region: ProQ; pfam04352 395019018856 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 395019018857 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 395019018858 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 395019018859 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 395019018860 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 395019018861 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 395019018862 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 395019018863 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 395019018864 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 395019018865 ParA-like protein; Provisional; Region: PHA02518 395019018866 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 395019018867 P-loop; other site 395019018868 Magnesium ion binding site [ion binding]; other site 395019018869 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 395019018870 ParB-like nuclease domain; Region: ParB; smart00470 395019018871 Initiator Replication protein; Region: Rep_3; pfam01051