-- dump date 20140619_054250 -- class Genbank::misc_feature -- table misc_feature_note -- id note 977880000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 977880000002 chromosomal replication initiation protein; Provisional; Region: dnaA; PRK14086 977880000003 Wnt and FGF inhibitory regulator; Region: Shisa; pfam13908 977880000004 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 977880000005 Walker A motif; other site 977880000006 ATP binding site [chemical binding]; other site 977880000007 Walker B motif; other site 977880000008 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 977880000009 arginine finger; other site 977880000010 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 977880000011 DnaA box-binding interface [nucleotide binding]; other site 977880000012 DNA polymerase III subunit beta; Validated; Region: PRK05643 977880000013 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 977880000014 putative DNA binding surface [nucleotide binding]; other site 977880000015 dimer interface [polypeptide binding]; other site 977880000016 beta-clamp/clamp loader binding surface; other site 977880000017 beta-clamp/translesion DNA polymerase binding surface; other site 977880000018 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 977880000019 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 977880000020 ATP binding site [chemical binding]; other site 977880000021 Mg2+ binding site [ion binding]; other site 977880000022 G-X-G motif; other site 977880000023 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 977880000024 anchoring element; other site 977880000025 dimer interface [polypeptide binding]; other site 977880000026 ATP binding site [chemical binding]; other site 977880000027 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 977880000028 active site 977880000029 putative metal-binding site [ion binding]; other site 977880000030 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 977880000031 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 977880000032 Transposase, Mutator family; Region: Transposase_mut; pfam00872 977880000033 MULE transposase domain; Region: MULE; pfam10551 977880000034 Predicted membrane protein [Function unknown]; Region: COG3766 977880000035 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 977880000036 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 977880000037 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 977880000038 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 977880000039 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 977880000040 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 977880000041 putative active site [active] 977880000042 putative metal binding site [ion binding]; other site 977880000043 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 977880000044 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 977880000045 Walker A/P-loop; other site 977880000046 ATP binding site [chemical binding]; other site 977880000047 Q-loop/lid; other site 977880000048 ABC transporter signature motif; other site 977880000049 Walker B; other site 977880000050 D-loop; other site 977880000051 H-loop/switch region; other site 977880000052 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 977880000053 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 977880000054 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 977880000055 putative PBP binding loops; other site 977880000056 dimer interface [polypeptide binding]; other site 977880000057 ABC-ATPase subunit interface; other site 977880000058 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 977880000059 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 977880000060 substrate binding pocket [chemical binding]; other site 977880000061 membrane-bound complex binding site; other site 977880000062 hinge residues; other site 977880000063 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880000064 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 977880000065 putative DNA binding site [nucleotide binding]; other site 977880000066 putative Zn2+ binding site [ion binding]; other site 977880000067 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880000068 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 977880000069 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 977880000070 homodimer interface [polypeptide binding]; other site 977880000071 chemical substrate binding site [chemical binding]; other site 977880000072 oligomer interface [polypeptide binding]; other site 977880000073 metal binding site [ion binding]; metal-binding site 977880000074 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 977880000075 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 977880000076 S-adenosylmethionine binding site [chemical binding]; other site 977880000077 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 977880000078 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 977880000079 DNA binding residues [nucleotide binding] 977880000080 putative dimer interface [polypeptide binding]; other site 977880000081 putative metal binding residues [ion binding]; other site 977880000082 Cache domain; Region: Cache_1; pfam02743 977880000083 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 977880000084 dimerization interface [polypeptide binding]; other site 977880000085 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880000086 dimer interface [polypeptide binding]; other site 977880000087 putative CheW interface [polypeptide binding]; other site 977880000088 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 977880000089 Protein of unknown function DUF72; Region: DUF72; pfam01904 977880000090 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 977880000091 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 977880000092 ATP binding site [chemical binding]; other site 977880000093 Mg++ binding site [ion binding]; other site 977880000094 motif III; other site 977880000095 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 977880000096 nucleotide binding region [chemical binding]; other site 977880000097 ATP-binding site [chemical binding]; other site 977880000098 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 977880000099 putative RNA binding site [nucleotide binding]; other site 977880000100 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 977880000101 FOG: CBS domain [General function prediction only]; Region: COG0517 977880000102 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880000103 putative substrate translocation pore; other site 977880000104 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 977880000105 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 977880000106 catalytic residues [active] 977880000107 dimer interface [polypeptide binding]; other site 977880000108 glutathionine S-transferase; Provisional; Region: PRK10542 977880000109 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 977880000110 C-terminal domain interface [polypeptide binding]; other site 977880000111 GSH binding site (G-site) [chemical binding]; other site 977880000112 dimer interface [polypeptide binding]; other site 977880000113 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 977880000114 dimer interface [polypeptide binding]; other site 977880000115 N-terminal domain interface [polypeptide binding]; other site 977880000116 substrate binding pocket (H-site) [chemical binding]; other site 977880000117 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 977880000118 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880000119 D-galactonate transporter; Region: 2A0114; TIGR00893 977880000120 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880000121 Transcriptional regulators [Transcription]; Region: GntR; COG1802 977880000122 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880000123 DNA-binding site [nucleotide binding]; DNA binding site 977880000124 FCD domain; Region: FCD; pfam07729 977880000125 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 977880000126 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 977880000127 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 977880000128 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 977880000129 metal binding site [ion binding]; metal-binding site 977880000130 putative dimer interface [polypeptide binding]; other site 977880000131 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 977880000132 Helix-turn-helix domain; Region: HTH_18; pfam12833 977880000133 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880000134 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880000135 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880000136 putative substrate translocation pore; other site 977880000137 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880000138 MarR family; Region: MarR; pfam01047 977880000139 EamA-like transporter family; Region: EamA; pfam00892 977880000140 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 977880000141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880000142 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 977880000143 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 977880000144 active site 977880000145 phosphorylation site [posttranslational modification] 977880000146 intermolecular recognition site; other site 977880000147 dimerization interface [polypeptide binding]; other site 977880000148 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 977880000149 DNA binding site [nucleotide binding] 977880000150 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 977880000151 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 977880000152 active site 977880000153 phosphorylation site [posttranslational modification] 977880000154 intermolecular recognition site; other site 977880000155 dimerization interface [polypeptide binding]; other site 977880000156 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 977880000157 DNA binding site [nucleotide binding] 977880000158 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880000159 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880000160 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 977880000161 trimer interface [polypeptide binding]; other site 977880000162 eyelet of channel; other site 977880000163 cell division topological specificity factor MinE; Provisional; Region: PRK13989 977880000164 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 977880000165 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 977880000166 Switch I; other site 977880000167 Switch II; other site 977880000168 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 977880000169 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 977880000170 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 977880000171 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 977880000172 oligomer interface [polypeptide binding]; other site 977880000173 metal binding site [ion binding]; metal-binding site 977880000174 metal binding site [ion binding]; metal-binding site 977880000175 putative Cl binding site [ion binding]; other site 977880000176 basic sphincter; other site 977880000177 hydrophobic gate; other site 977880000178 periplasmic entrance; other site 977880000179 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 977880000180 Sel1-like repeats; Region: SEL1; smart00671 977880000181 Sel1-like repeats; Region: SEL1; smart00671 977880000182 Sel1-like repeats; Region: SEL1; smart00671 977880000183 Sel1 repeat; Region: Sel1; cl02723 977880000184 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 977880000185 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 977880000186 GatB domain; Region: GatB_Yqey; smart00845 977880000187 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 977880000188 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 977880000189 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 977880000190 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 977880000191 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 977880000192 rod shape-determining protein MreB; Provisional; Region: PRK13927 977880000193 MreB and similar proteins; Region: MreB_like; cd10225 977880000194 nucleotide binding site [chemical binding]; other site 977880000195 Mg binding site [ion binding]; other site 977880000196 putative protofilament interaction site [polypeptide binding]; other site 977880000197 RodZ interaction site [polypeptide binding]; other site 977880000198 rod shape-determining protein MreC; Provisional; Region: PRK13922 977880000199 rod shape-determining protein MreC; Region: MreC; pfam04085 977880000200 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 977880000201 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 977880000202 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 977880000203 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 977880000204 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 977880000205 Protein of unknown function, DUF484; Region: DUF484; cl17449 977880000206 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 977880000207 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 977880000208 active site 977880000209 DNA binding site [nucleotide binding] 977880000210 Int/Topo IB signature motif; other site 977880000211 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 977880000212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880000213 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 977880000214 dimerization interface [polypeptide binding]; other site 977880000215 substrate binding pocket [chemical binding]; other site 977880000216 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 977880000217 lipoate-protein ligase B; Provisional; Region: PRK14343 977880000218 lipoyl synthase; Provisional; Region: PRK05481 977880000219 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 977880000220 FeS/SAM binding site; other site 977880000221 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 977880000222 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 977880000223 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 977880000224 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 977880000225 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 977880000226 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 977880000227 putative active site [active] 977880000228 Predicted membrane protein [Function unknown]; Region: COG3819 977880000229 Predicted membrane protein [Function unknown]; Region: COG3817 977880000230 Protein of unknown function (DUF979); Region: DUF979; pfam06166 977880000231 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 977880000232 putative substrate binding pocket [chemical binding]; other site 977880000233 AC domain interface; other site 977880000234 catalytic triad [active] 977880000235 AB domain interface; other site 977880000236 interchain disulfide; other site 977880000237 Predicted integral membrane protein [Function unknown]; Region: COG5652 977880000238 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 977880000239 mce related protein; Region: MCE; pfam02470 977880000240 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 977880000241 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 977880000242 Walker A/P-loop; other site 977880000243 ATP binding site [chemical binding]; other site 977880000244 Q-loop/lid; other site 977880000245 ABC transporter signature motif; other site 977880000246 Walker B; other site 977880000247 D-loop; other site 977880000248 H-loop/switch region; other site 977880000249 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 977880000250 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 977880000251 Permease; Region: Permease; pfam02405 977880000252 biotin--protein ligase; Provisional; Region: PRK06955 977880000253 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 977880000254 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 977880000255 pantothenate kinase; Reviewed; Region: PRK13328 977880000256 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 977880000257 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 977880000258 active site 977880000259 nucleotide binding site [chemical binding]; other site 977880000260 HIGH motif; other site 977880000261 KMSKS motif; other site 977880000262 Enterobacterial exodeoxyribonuclease VIII; Region: Exonuc_VIII; pfam06630 977880000263 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 977880000264 dinuclear metal binding motif [ion binding]; other site 977880000265 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 977880000266 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 977880000267 active site 977880000268 nucleophile elbow; other site 977880000269 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 977880000270 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 977880000271 substrate binding site [chemical binding]; other site 977880000272 oxyanion hole (OAH) forming residues; other site 977880000273 trimer interface [polypeptide binding]; other site 977880000274 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 977880000275 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 977880000276 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 977880000277 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880000278 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 977880000279 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880000280 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880000281 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 977880000282 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 977880000283 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 977880000284 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 977880000285 active site residue [active] 977880000286 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 977880000287 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 977880000288 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 977880000289 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 977880000290 substrate binding pocket [chemical binding]; other site 977880000291 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 977880000292 B12 binding site [chemical binding]; other site 977880000293 cobalt ligand [ion binding]; other site 977880000294 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 977880000295 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880000296 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 977880000297 active site 977880000298 phosphorylation site [posttranslational modification] 977880000299 intermolecular recognition site; other site 977880000300 dimerization interface [polypeptide binding]; other site 977880000301 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 977880000302 DNA binding residues [nucleotide binding] 977880000303 dimerization interface [polypeptide binding]; other site 977880000304 Response regulator receiver domain; Region: Response_reg; pfam00072 977880000305 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 977880000306 active site 977880000307 phosphorylation site [posttranslational modification] 977880000308 intermolecular recognition site; other site 977880000309 dimerization interface [polypeptide binding]; other site 977880000310 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG5278 977880000311 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880000312 Histidine kinase; Region: HisKA_3; pfam07730 977880000313 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 977880000314 ATP binding site [chemical binding]; other site 977880000315 Mg2+ binding site [ion binding]; other site 977880000316 G-X-G motif; other site 977880000317 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 977880000318 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 977880000319 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 977880000320 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 977880000321 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 977880000322 active site 977880000323 HIGH motif; other site 977880000324 KMSK motif region; other site 977880000325 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 977880000326 tRNA binding surface [nucleotide binding]; other site 977880000327 anticodon binding site; other site 977880000328 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 977880000329 Sporulation related domain; Region: SPOR; pfam05036 977880000330 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 977880000331 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 977880000332 catalytic residues [active] 977880000333 hinge region; other site 977880000334 alpha helical domain; other site 977880000335 short chain dehydrogenase; Provisional; Region: PRK07024 977880000336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880000337 NAD(P) binding site [chemical binding]; other site 977880000338 active site 977880000339 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 977880000340 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 977880000341 intersubunit interface [polypeptide binding]; other site 977880000342 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 977880000343 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 977880000344 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 977880000345 DNA binding residues [nucleotide binding] 977880000346 putative dimer interface [polypeptide binding]; other site 977880000347 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 977880000348 CoenzymeA binding site [chemical binding]; other site 977880000349 subunit interaction site [polypeptide binding]; other site 977880000350 PHB binding site; other site 977880000351 isovaleryl-CoA dehydrogenase; Region: PLN02519 977880000352 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 977880000353 substrate binding site [chemical binding]; other site 977880000354 FAD binding site [chemical binding]; other site 977880000355 catalytic base [active] 977880000356 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 977880000357 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 977880000358 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 977880000359 active site clefts [active] 977880000360 zinc binding site [ion binding]; other site 977880000361 dimer interface [polypeptide binding]; other site 977880000362 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 977880000363 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 977880000364 dimer interface [polypeptide binding]; other site 977880000365 active site 977880000366 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 977880000367 C factor cell-cell signaling protein; Provisional; Region: PRK09009 977880000368 NADP binding site [chemical binding]; other site 977880000369 homodimer interface [polypeptide binding]; other site 977880000370 active site 977880000371 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880000372 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880000373 active site 977880000374 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 977880000375 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 977880000376 putative catalytic residue [active] 977880000377 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 977880000378 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 977880000379 active site 977880000380 motif I; other site 977880000381 motif II; other site 977880000382 hypothetical protein; Provisional; Region: PRK01842 977880000383 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 977880000384 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 977880000385 putative C-terminal domain interface [polypeptide binding]; other site 977880000386 putative GSH binding site (G-site) [chemical binding]; other site 977880000387 putative dimer interface [polypeptide binding]; other site 977880000388 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 977880000389 N-terminal domain interface [polypeptide binding]; other site 977880000390 dimer interface [polypeptide binding]; other site 977880000391 substrate binding pocket (H-site) [chemical binding]; other site 977880000392 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 977880000393 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 977880000394 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 977880000395 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 977880000396 enoyl-CoA hydratase; Provisional; Region: PRK05995 977880000397 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 977880000398 substrate binding site [chemical binding]; other site 977880000399 oxyanion hole (OAH) forming residues; other site 977880000400 trimer interface [polypeptide binding]; other site 977880000401 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 977880000402 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 977880000403 inhibitor-cofactor binding pocket; inhibition site 977880000404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880000405 catalytic residue [active] 977880000406 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 977880000407 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 977880000408 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 977880000409 catalytic residue [active] 977880000410 AAA domain; Region: AAA_26; pfam13500 977880000411 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 977880000412 biotin synthase; Region: bioB; TIGR00433 977880000413 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 977880000414 FeS/SAM binding site; other site 977880000415 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 977880000416 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 977880000417 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 977880000418 ATP-grasp domain; Region: ATP-grasp_4; cl17255 977880000419 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 977880000420 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 977880000421 carboxyltransferase (CT) interaction site; other site 977880000422 biotinylation site [posttranslational modification]; other site 977880000423 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 977880000424 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 977880000425 putative ligand binding site [chemical binding]; other site 977880000426 NAD binding site [chemical binding]; other site 977880000427 dimerization interface [polypeptide binding]; other site 977880000428 catalytic site [active] 977880000429 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 977880000430 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 977880000431 active site 977880000432 catalytic residues [active] 977880000433 metal binding site [ion binding]; metal-binding site 977880000434 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 977880000435 putative deacylase active site [active] 977880000436 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 977880000437 active site 1 [active] 977880000438 active site 2 [active] 977880000439 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 977880000440 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 977880000441 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 977880000442 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 977880000443 N-terminal plug; other site 977880000444 ligand-binding site [chemical binding]; other site 977880000445 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 977880000446 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 977880000447 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 977880000448 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 977880000449 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 977880000450 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 977880000451 P-loop, Walker A motif; other site 977880000452 Base recognition motif; other site 977880000453 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 977880000454 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 977880000455 metal binding site 2 [ion binding]; metal-binding site 977880000456 putative DNA binding helix; other site 977880000457 metal binding site 1 [ion binding]; metal-binding site 977880000458 dimer interface [polypeptide binding]; other site 977880000459 structural Zn2+ binding site [ion binding]; other site 977880000460 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880000461 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880000462 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 977880000463 active site 977880000464 HslU subunit interaction site [polypeptide binding]; other site 977880000465 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 977880000466 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 977880000467 Walker A motif; other site 977880000468 ATP binding site [chemical binding]; other site 977880000469 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 977880000470 Walker B motif; other site 977880000471 arginine finger; other site 977880000472 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 977880000473 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 977880000474 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 977880000475 active site 977880000476 phosphorylation site [posttranslational modification] 977880000477 intermolecular recognition site; other site 977880000478 dimerization interface [polypeptide binding]; other site 977880000479 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880000480 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880000481 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 977880000482 ATP binding site [chemical binding]; other site 977880000483 Mg2+ binding site [ion binding]; other site 977880000484 G-X-G motif; other site 977880000485 Protein of unknown function (DUF461); Region: DUF461; pfam04314 977880000486 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 977880000487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880000488 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 977880000489 putative substrate binding pocket [chemical binding]; other site 977880000490 putative dimerization interface [polypeptide binding]; other site 977880000491 Protein of unknown function, DUF606; Region: DUF606; pfam04657 977880000492 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 977880000493 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 977880000494 homohexameric interface [polypeptide binding]; other site 977880000495 nucleotide binding site [chemical binding]; other site 977880000496 N-acetyl-L-glutamate binding site [chemical binding]; other site 977880000497 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 977880000498 division inhibitor protein; Provisional; Region: slmA; PRK09480 977880000499 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880000500 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 977880000501 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 977880000502 Methyltransferase domain; Region: Methyltransf_23; pfam13489 977880000503 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 977880000504 S-adenosylmethionine binding site [chemical binding]; other site 977880000505 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_22; cd08359 977880000506 putative dimer interface [polypeptide binding]; other site 977880000507 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880000508 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880000509 LysR family transcriptional regulator; Provisional; Region: PRK14997 977880000510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880000511 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 977880000512 putative effector binding pocket; other site 977880000513 dimerization interface [polypeptide binding]; other site 977880000514 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 977880000515 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 977880000516 active site 2 [active] 977880000517 active site 1 [active] 977880000518 muropeptide transporter; Reviewed; Region: ampG; PRK11902 977880000519 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880000520 putative substrate translocation pore; other site 977880000521 Peptidase family M48; Region: Peptidase_M48; pfam01435 977880000522 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 977880000523 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 977880000524 active site 977880000525 catalytic triad [active] 977880000526 catalytic residues [active] 977880000527 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 977880000528 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 977880000529 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 977880000530 peptide binding site [polypeptide binding]; other site 977880000531 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 977880000532 toxin interface [polypeptide binding]; other site 977880000533 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 977880000534 Zn binding site [ion binding]; other site 977880000535 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 977880000536 non-specific DNA binding site [nucleotide binding]; other site 977880000537 salt bridge; other site 977880000538 sequence-specific DNA binding site [nucleotide binding]; other site 977880000539 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 977880000540 putative active site [active] 977880000541 putative catalytic site [active] 977880000542 putative DNA binding site [nucleotide binding]; other site 977880000543 putative phosphate binding site [ion binding]; other site 977880000544 metal binding site A [ion binding]; metal-binding site 977880000545 putative AP binding site [nucleotide binding]; other site 977880000546 putative metal binding site B [ion binding]; other site 977880000547 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 977880000548 active site 977880000549 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 977880000550 Patatin phospholipase; Region: DUF3734; pfam12536 977880000551 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 977880000552 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 977880000553 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 977880000554 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 977880000555 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 977880000556 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 977880000557 putative acyl-acceptor binding pocket; other site 977880000558 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 977880000559 putative acyl-acceptor binding pocket; other site 977880000560 S-adenosylmethionine synthetase; Validated; Region: PRK05250 977880000561 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 977880000562 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 977880000563 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 977880000564 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 977880000565 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 977880000566 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 977880000567 NAD(P) binding site [chemical binding]; other site 977880000568 catalytic residues [active] 977880000569 choline dehydrogenase; Validated; Region: PRK02106 977880000570 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880000571 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 977880000572 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 977880000573 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880000574 active site 977880000575 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 977880000576 ThiC-associated domain; Region: ThiC-associated; pfam13667 977880000577 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 977880000578 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 977880000579 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 977880000580 thiS-thiF/thiG interaction site; other site 977880000581 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 977880000582 ThiS interaction site; other site 977880000583 putative active site [active] 977880000584 tetramer interface [polypeptide binding]; other site 977880000585 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 977880000586 thiamine phosphate binding site [chemical binding]; other site 977880000587 active site 977880000588 pyrophosphate binding site [ion binding]; other site 977880000589 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880000590 Coenzyme A binding pocket [chemical binding]; other site 977880000591 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 977880000592 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 977880000593 CoenzymeA binding site [chemical binding]; other site 977880000594 subunit interaction site [polypeptide binding]; other site 977880000595 PHB binding site; other site 977880000596 PGDYG protein; Region: PGDYG; pfam14083 977880000597 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 977880000598 dimer interface [polypeptide binding]; other site 977880000599 substrate binding site [chemical binding]; other site 977880000600 ATP binding site [chemical binding]; other site 977880000601 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 977880000602 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 977880000603 homotetramer interface [polypeptide binding]; other site 977880000604 ligand binding site [chemical binding]; other site 977880000605 catalytic site [active] 977880000606 NAD binding site [chemical binding]; other site 977880000607 Predicted membrane protein [Function unknown]; Region: COG1950 977880000608 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 977880000609 FAD binding site [chemical binding]; other site 977880000610 TfoX N-terminal domain; Region: TfoX_N; pfam04993 977880000611 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 977880000612 Uncharacterized conserved protein [Function unknown]; Region: COG1656 977880000613 Protein of unknown function DUF82; Region: DUF82; pfam01927 977880000614 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 977880000615 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 977880000616 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 977880000617 N-acetyl-D-glucosamine binding site [chemical binding]; other site 977880000618 catalytic residue [active] 977880000619 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 977880000620 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 977880000621 putative NAD(P) binding site [chemical binding]; other site 977880000622 active site 977880000623 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 977880000624 putative C-terminal domain interface [polypeptide binding]; other site 977880000625 putative GSH binding site (G-site) [chemical binding]; other site 977880000626 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 977880000627 putative dimer interface [polypeptide binding]; other site 977880000628 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 977880000629 putative N-terminal domain interface [polypeptide binding]; other site 977880000630 putative dimer interface [polypeptide binding]; other site 977880000631 putative substrate binding pocket (H-site) [chemical binding]; other site 977880000632 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 977880000633 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 977880000634 active site 977880000635 NTP binding site [chemical binding]; other site 977880000636 metal binding triad [ion binding]; metal-binding site 977880000637 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 977880000638 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 977880000639 Zn2+ binding site [ion binding]; other site 977880000640 Mg2+ binding site [ion binding]; other site 977880000641 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 977880000642 Uncharacterized conserved protein [Function unknown]; Region: COG1565 977880000643 short chain dehydrogenase; Provisional; Region: PRK09134 977880000644 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880000645 NAD(P) binding site [chemical binding]; other site 977880000646 active site 977880000647 Dihydroneopterin aldolase; Region: FolB; smart00905 977880000648 active site 977880000649 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 977880000650 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 977880000651 Ligand Binding Site [chemical binding]; other site 977880000652 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 977880000653 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 977880000654 Substrate binding site; other site 977880000655 Mg++ binding site; other site 977880000656 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 977880000657 active site 977880000658 substrate binding site [chemical binding]; other site 977880000659 CoA binding site [chemical binding]; other site 977880000660 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 977880000661 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 977880000662 glutaminase active site [active] 977880000663 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 977880000664 dimer interface [polypeptide binding]; other site 977880000665 active site 977880000666 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 977880000667 dimer interface [polypeptide binding]; other site 977880000668 active site 977880000669 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880000670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880000671 LysR substrate binding domain; Region: LysR_substrate; pfam03466 977880000672 dimerization interface [polypeptide binding]; other site 977880000673 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880000674 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 977880000675 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 977880000676 heme binding site [chemical binding]; other site 977880000677 ferroxidase pore; other site 977880000678 ferroxidase diiron center [ion binding]; other site 977880000679 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880000680 Coenzyme A binding pocket [chemical binding]; other site 977880000681 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 977880000682 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 977880000683 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 977880000684 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880000685 DNA-binding site [nucleotide binding]; DNA binding site 977880000686 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 977880000687 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880000688 homodimer interface [polypeptide binding]; other site 977880000689 catalytic residue [active] 977880000690 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 977880000691 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 977880000692 inhibitor-cofactor binding pocket; inhibition site 977880000693 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880000694 catalytic residue [active] 977880000695 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 977880000696 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 977880000697 tetrameric interface [polypeptide binding]; other site 977880000698 NAD binding site [chemical binding]; other site 977880000699 catalytic residues [active] 977880000700 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880000701 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 977880000702 dimer interface [polypeptide binding]; other site 977880000703 amino acid transporter; Region: 2A0306; TIGR00909 977880000704 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 977880000705 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 977880000706 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880000707 DNA-binding site [nucleotide binding]; DNA binding site 977880000708 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 977880000709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880000710 homodimer interface [polypeptide binding]; other site 977880000711 catalytic residue [active] 977880000712 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 977880000713 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 977880000714 B12 binding site [chemical binding]; other site 977880000715 cobalt ligand [ion binding]; other site 977880000716 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 977880000717 Walker A; other site 977880000718 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, unknown subfamily 1; composed of uncharacterized bacterial proteins containing a C-terminal MCM domain. MCM catalyzes the isomerization of methylmalonyl-CoA to succinyl-CoA. The...; Region: MM_CoA_mutase_1; cd03678 977880000719 putative active site [active] 977880000720 putative substrate binding site [chemical binding]; other site 977880000721 putative coenzyme B12 binding site [chemical binding]; other site 977880000722 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 977880000723 HIT family signature motif; other site 977880000724 catalytic residue [active] 977880000725 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 977880000726 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 977880000727 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 977880000728 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 977880000729 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 977880000730 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 977880000731 ligand binding site [chemical binding]; other site 977880000732 flexible hinge region; other site 977880000733 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 977880000734 putative switch regulator; other site 977880000735 non-specific DNA interactions [nucleotide binding]; other site 977880000736 DNA binding site [nucleotide binding] 977880000737 sequence specific DNA binding site [nucleotide binding]; other site 977880000738 putative cAMP binding site [chemical binding]; other site 977880000739 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 977880000740 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 977880000741 acyl-activating enzyme (AAE) consensus motif; other site 977880000742 putative AMP binding site [chemical binding]; other site 977880000743 putative active site [active] 977880000744 putative CoA binding site [chemical binding]; other site 977880000745 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 977880000746 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 977880000747 Walker A/P-loop; other site 977880000748 ATP binding site [chemical binding]; other site 977880000749 Q-loop/lid; other site 977880000750 ABC transporter signature motif; other site 977880000751 Walker B; other site 977880000752 D-loop; other site 977880000753 H-loop/switch region; other site 977880000754 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 977880000755 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 977880000756 TM-ABC transporter signature motif; other site 977880000757 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 977880000758 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 977880000759 TM-ABC transporter signature motif; other site 977880000760 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 977880000761 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 977880000762 putative ligand binding site [chemical binding]; other site 977880000763 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 977880000764 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 977880000765 Walker A/P-loop; other site 977880000766 ATP binding site [chemical binding]; other site 977880000767 Q-loop/lid; other site 977880000768 ABC transporter signature motif; other site 977880000769 Walker B; other site 977880000770 D-loop; other site 977880000771 H-loop/switch region; other site 977880000772 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880000773 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 977880000774 acyl-activating enzyme (AAE) consensus motif; other site 977880000775 active site 977880000776 AMP binding site [chemical binding]; other site 977880000777 CoA binding site [chemical binding]; other site 977880000778 Protein of unknown function (DUF454); Region: DUF454; pfam04304 977880000779 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 977880000780 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 977880000781 FMN binding site [chemical binding]; other site 977880000782 substrate binding site [chemical binding]; other site 977880000783 putative catalytic residue [active] 977880000784 sensory histidine kinase CreC; Provisional; Region: PRK11100 977880000785 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 977880000786 dimerization interface [polypeptide binding]; other site 977880000787 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 977880000788 dimer interface [polypeptide binding]; other site 977880000789 phosphorylation site [posttranslational modification] 977880000790 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 977880000791 ATP binding site [chemical binding]; other site 977880000792 Mg2+ binding site [ion binding]; other site 977880000793 G-X-G motif; other site 977880000794 DNA-binding response regulator CreB; Provisional; Region: PRK11083 977880000795 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 977880000796 active site 977880000797 phosphorylation site [posttranslational modification] 977880000798 intermolecular recognition site; other site 977880000799 dimerization interface [polypeptide binding]; other site 977880000800 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 977880000801 DNA binding site [nucleotide binding] 977880000802 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 977880000803 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 977880000804 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 977880000805 active site 977880000806 phosphorylation site [posttranslational modification] 977880000807 intermolecular recognition site; other site 977880000808 dimerization interface [polypeptide binding]; other site 977880000809 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 977880000810 Walker A motif; other site 977880000811 ATP binding site [chemical binding]; other site 977880000812 Walker B motif; other site 977880000813 arginine finger; other site 977880000814 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880000815 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 977880000816 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 977880000817 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 977880000818 dimer interface [polypeptide binding]; other site 977880000819 phosphorylation site [posttranslational modification] 977880000820 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 977880000821 ATP binding site [chemical binding]; other site 977880000822 G-X-G motif; other site 977880000823 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 977880000824 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 977880000825 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 977880000826 dimer interface [polypeptide binding]; other site 977880000827 [2Fe-2S] cluster binding site [ion binding]; other site 977880000828 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 977880000829 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 977880000830 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 977880000831 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 977880000832 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 977880000833 hypothetical protein; Provisional; Region: PRK02047 977880000834 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 977880000835 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 977880000836 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 977880000837 putative RNA binding site [nucleotide binding]; other site 977880000838 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 977880000839 S-adenosylmethionine binding site [chemical binding]; other site 977880000840 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 977880000841 Part of AAA domain; Region: AAA_19; pfam13245 977880000842 Family description; Region: UvrD_C_2; pfam13538 977880000843 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 977880000844 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 977880000845 catalytic residues [active] 977880000846 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 977880000847 LysE type translocator; Region: LysE; cl00565 977880000848 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 977880000849 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880000850 DNA-binding site [nucleotide binding]; DNA binding site 977880000851 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 977880000852 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 977880000853 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 977880000854 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 977880000855 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 977880000856 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 977880000857 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 977880000858 Walker A motif; other site 977880000859 ATP binding site [chemical binding]; other site 977880000860 Walker B motif; other site 977880000861 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 977880000862 Membrane fusogenic activity; Region: BMFP; pfam04380 977880000863 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 977880000864 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 977880000865 Nitrogen regulatory protein P-II; Region: P-II; smart00938 977880000866 ammonium transporter; Provisional; Region: PRK10666 977880000867 Glutamate-cysteine ligase; Region: GshA; pfam08886 977880000868 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 977880000869 glutathione synthetase; Provisional; Region: PRK05246 977880000870 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 977880000871 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 977880000872 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 977880000873 active pocket/dimerization site; other site 977880000874 active site 977880000875 phosphorylation site [posttranslational modification] 977880000876 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 977880000877 dimerization domain swap beta strand [polypeptide binding]; other site 977880000878 regulatory protein interface [polypeptide binding]; other site 977880000879 active site 977880000880 regulatory phosphorylation site [posttranslational modification]; other site 977880000881 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 977880000882 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 977880000883 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 977880000884 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 977880000885 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 977880000886 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 977880000887 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 977880000888 heme binding site [chemical binding]; other site 977880000889 ferroxidase pore; other site 977880000890 ferroxidase diiron center [ion binding]; other site 977880000891 selenophosphate synthetase; Provisional; Region: PRK00943 977880000892 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 977880000893 dimerization interface [polypeptide binding]; other site 977880000894 putative ATP binding site [chemical binding]; other site 977880000895 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 977880000896 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 977880000897 active site residue [active] 977880000898 PGAP1-like protein; Region: PGAP1; pfam07819 977880000899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 977880000900 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 977880000901 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 977880000902 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 977880000903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 977880000904 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 977880000905 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 977880000906 ATP binding site [chemical binding]; other site 977880000907 substrate interface [chemical binding]; other site 977880000908 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 977880000909 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 977880000910 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 977880000911 protein binding site [polypeptide binding]; other site 977880000912 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 977880000913 Catalytic dyad [active] 977880000914 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 977880000915 catalytic core [active] 977880000916 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 977880000917 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 977880000918 active site residue [active] 977880000919 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 977880000920 GSH binding site [chemical binding]; other site 977880000921 catalytic residues [active] 977880000922 preprotein translocase subunit SecB; Validated; Region: PRK05751 977880000923 SecA binding site; other site 977880000924 Preprotein binding site; other site 977880000925 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 977880000926 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 977880000927 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 977880000928 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880000929 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 977880000930 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 977880000931 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 977880000932 active site 977880000933 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 977880000934 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 977880000935 S-adenosylmethionine binding site [chemical binding]; other site 977880000936 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 977880000937 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 977880000938 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 977880000939 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 977880000940 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 977880000941 Cytochrome c; Region: Cytochrom_C; pfam00034 977880000942 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 977880000943 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 977880000944 Subunit I/III interface [polypeptide binding]; other site 977880000945 D-pathway; other site 977880000946 Subunit I/VIIc interface [polypeptide binding]; other site 977880000947 Subunit I/IV interface [polypeptide binding]; other site 977880000948 Subunit I/II interface [polypeptide binding]; other site 977880000949 Low-spin heme (heme a) binding site [chemical binding]; other site 977880000950 Subunit I/VIIa interface [polypeptide binding]; other site 977880000951 Subunit I/VIa interface [polypeptide binding]; other site 977880000952 Dimer interface; other site 977880000953 Putative water exit pathway; other site 977880000954 Binuclear center (heme a3/CuB) [ion binding]; other site 977880000955 K-pathway; other site 977880000956 Subunit I/Vb interface [polypeptide binding]; other site 977880000957 Putative proton exit pathway; other site 977880000958 Subunit I/VIb interface; other site 977880000959 Subunit I/VIc interface [polypeptide binding]; other site 977880000960 Electron transfer pathway; other site 977880000961 Subunit I/VIIIb interface [polypeptide binding]; other site 977880000962 Subunit I/VIIb interface [polypeptide binding]; other site 977880000963 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 977880000964 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 977880000965 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 977880000966 Subunit III/VIIa interface [polypeptide binding]; other site 977880000967 Phospholipid binding site [chemical binding]; other site 977880000968 Subunit I/III interface [polypeptide binding]; other site 977880000969 Subunit III/VIb interface [polypeptide binding]; other site 977880000970 Subunit III/VIa interface; other site 977880000971 Subunit III/Vb interface [polypeptide binding]; other site 977880000972 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 977880000973 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 977880000974 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 977880000975 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 977880000976 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 977880000977 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 977880000978 UbiA prenyltransferase family; Region: UbiA; pfam01040 977880000979 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 977880000980 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 977880000981 Cu(I) binding site [ion binding]; other site 977880000982 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 977880000983 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 977880000984 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 977880000985 DNA binding residues [nucleotide binding] 977880000986 Pirin-related protein [General function prediction only]; Region: COG1741 977880000987 Pirin; Region: Pirin; pfam02678 977880000988 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 977880000989 glycosyl transferase family protein; Provisional; Region: PRK08136 977880000990 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 977880000991 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 977880000992 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 977880000993 Walker A/P-loop; other site 977880000994 ATP binding site [chemical binding]; other site 977880000995 Q-loop/lid; other site 977880000996 ABC transporter signature motif; other site 977880000997 Walker B; other site 977880000998 D-loop; other site 977880000999 H-loop/switch region; other site 977880001000 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 977880001001 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 977880001002 dimer interface [polypeptide binding]; other site 977880001003 conserved gate region; other site 977880001004 putative PBP binding loops; other site 977880001005 ABC-ATPase subunit interface; other site 977880001006 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 977880001007 NMT1-like family; Region: NMT1_2; pfam13379 977880001008 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 977880001009 ANTAR domain; Region: ANTAR; pfam03861 977880001010 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 977880001011 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 977880001012 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 977880001013 maleylacetoacetate isomerase; Region: maiA; TIGR01262 977880001014 C-terminal domain interface [polypeptide binding]; other site 977880001015 GSH binding site (G-site) [chemical binding]; other site 977880001016 putative dimer interface [polypeptide binding]; other site 977880001017 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 977880001018 dimer interface [polypeptide binding]; other site 977880001019 N-terminal domain interface [polypeptide binding]; other site 977880001020 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 977880001021 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 977880001022 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 977880001023 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 977880001024 P loop; other site 977880001025 GTP binding site [chemical binding]; other site 977880001026 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 977880001027 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 977880001028 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 977880001029 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 977880001030 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 977880001031 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 977880001032 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 977880001033 S-adenosylmethionine binding site [chemical binding]; other site 977880001034 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 977880001035 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 977880001036 active site 977880001037 (T/H)XGH motif; other site 977880001038 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 977880001039 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 977880001040 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 977880001041 putative active site [active] 977880001042 catalytic residue [active] 977880001043 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 977880001044 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 977880001045 5S rRNA interface [nucleotide binding]; other site 977880001046 CTC domain interface [polypeptide binding]; other site 977880001047 L16 interface [polypeptide binding]; other site 977880001048 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 977880001049 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 977880001050 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 977880001051 active site 977880001052 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 977880001053 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 977880001054 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 977880001055 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 977880001056 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 977880001057 TPR motif; other site 977880001058 binding surface 977880001059 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 977880001060 binding surface 977880001061 TPR motif; other site 977880001062 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 977880001063 binding surface 977880001064 TPR motif; other site 977880001065 TPR repeat; Region: TPR_11; pfam13414 977880001066 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 977880001067 binding surface 977880001068 TPR motif; other site 977880001069 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 977880001070 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 977880001071 DNA binding site [nucleotide binding] 977880001072 catalytic residue [active] 977880001073 H2TH interface [polypeptide binding]; other site 977880001074 putative catalytic residues [active] 977880001075 turnover-facilitating residue; other site 977880001076 intercalation triad [nucleotide binding]; other site 977880001077 8OG recognition residue [nucleotide binding]; other site 977880001078 putative reading head residues; other site 977880001079 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 977880001080 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 977880001081 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 977880001082 G1 box; other site 977880001083 GTP/Mg2+ binding site [chemical binding]; other site 977880001084 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 977880001085 G2 box; other site 977880001086 Switch I region; other site 977880001087 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 977880001088 G3 box; other site 977880001089 Switch II region; other site 977880001090 GTP/Mg2+ binding site [chemical binding]; other site 977880001091 G4 box; other site 977880001092 G5 box; other site 977880001093 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 977880001094 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 977880001095 minor groove reading motif; other site 977880001096 helix-hairpin-helix signature motif; other site 977880001097 substrate binding pocket [chemical binding]; other site 977880001098 active site 977880001099 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 977880001100 DNA binding and oxoG recognition site [nucleotide binding] 977880001101 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 977880001102 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 977880001103 psiF repeat; Region: PsiF_repeat; pfam07769 977880001104 HPr kinase/phosphorylase; Provisional; Region: PRK05428 977880001105 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 977880001106 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 977880001107 Hpr binding site; other site 977880001108 active site 977880001109 homohexamer subunit interaction site [polypeptide binding]; other site 977880001110 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 977880001111 active site 977880001112 phosphorylation site [posttranslational modification] 977880001113 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 977880001114 30S subunit binding site; other site 977880001115 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 977880001116 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 977880001117 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 977880001118 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 977880001119 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 977880001120 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 977880001121 Walker A/P-loop; other site 977880001122 ATP binding site [chemical binding]; other site 977880001123 Q-loop/lid; other site 977880001124 ABC transporter signature motif; other site 977880001125 Walker B; other site 977880001126 D-loop; other site 977880001127 H-loop/switch region; other site 977880001128 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 977880001129 OstA-like protein; Region: OstA; pfam03968 977880001130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 977880001131 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 977880001132 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 977880001133 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 977880001134 putative active site [active] 977880001135 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 977880001136 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 977880001137 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 977880001138 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 977880001139 TrkA-N domain; Region: TrkA_N; pfam02254 977880001140 TrkA-C domain; Region: TrkA_C; pfam02080 977880001141 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 977880001142 intracellular protease, PfpI family; Region: PfpI; TIGR01382 977880001143 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 977880001144 conserved cys residue [active] 977880001145 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 977880001146 active site 977880001147 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 977880001148 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 977880001149 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 977880001150 PhoU domain; Region: PhoU; pfam01895 977880001151 PhoU domain; Region: PhoU; pfam01895 977880001152 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 977880001153 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 977880001154 catalytic core [active] 977880001155 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 977880001156 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 977880001157 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 977880001158 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 977880001159 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880001160 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880001161 putative substrate translocation pore; other site 977880001162 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 977880001163 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 977880001164 dimer interface [polypeptide binding]; other site 977880001165 ssDNA binding site [nucleotide binding]; other site 977880001166 tetramer (dimer of dimers) interface [polypeptide binding]; other site 977880001167 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880001168 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 977880001169 trimer interface [polypeptide binding]; other site 977880001170 eyelet of channel; other site 977880001171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880001172 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 977880001173 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 977880001174 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 977880001175 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880001176 metal binding site [ion binding]; metal-binding site 977880001177 active site 977880001178 I-site; other site 977880001179 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 977880001180 Ion channel; Region: Ion_trans_2; pfam07885 977880001181 Short repeat of unknown function (DUF308); Region: DUF308; pfam03729 977880001182 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 977880001183 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 977880001184 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 977880001185 putative active site [active] 977880001186 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 977880001187 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 977880001188 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 977880001189 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 977880001190 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 977880001191 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 977880001192 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 977880001193 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 977880001194 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 977880001195 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 977880001196 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 977880001197 Walker A/P-loop; other site 977880001198 ATP binding site [chemical binding]; other site 977880001199 Q-loop/lid; other site 977880001200 ABC transporter signature motif; other site 977880001201 Walker B; other site 977880001202 D-loop; other site 977880001203 H-loop/switch region; other site 977880001204 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880001205 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880001206 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880001207 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 977880001208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 977880001209 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 977880001210 threonine dehydratase; Reviewed; Region: PRK09224 977880001211 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 977880001212 tetramer interface [polypeptide binding]; other site 977880001213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880001214 catalytic residue [active] 977880001215 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 977880001216 putative Ile/Val binding site [chemical binding]; other site 977880001217 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 977880001218 putative Ile/Val binding site [chemical binding]; other site 977880001219 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 977880001220 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 977880001221 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 977880001222 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 977880001223 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 977880001224 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 977880001225 active site 977880001226 homotetramer interface [polypeptide binding]; other site 977880001227 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_a; cd00913 977880001228 aromatic arch; other site 977880001229 DCoH dimer interaction site [polypeptide binding]; other site 977880001230 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 977880001231 DCoH tetramer interaction site [polypeptide binding]; other site 977880001232 substrate binding site [chemical binding]; other site 977880001233 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 977880001234 metal-binding site 977880001235 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 977880001236 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 977880001237 XdhC Rossmann domain; Region: XdhC_C; pfam13478 977880001238 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 977880001239 putative hydrophobic ligand binding site [chemical binding]; other site 977880001240 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 977880001241 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 977880001242 metal ion-dependent adhesion site (MIDAS); other site 977880001243 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 977880001244 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 977880001245 Walker A motif; other site 977880001246 ATP binding site [chemical binding]; other site 977880001247 Walker B motif; other site 977880001248 arginine finger; other site 977880001249 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 977880001250 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 977880001251 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 977880001252 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 977880001253 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880001254 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 977880001255 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 977880001256 catalytic loop [active] 977880001257 iron binding site [ion binding]; other site 977880001258 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 977880001259 Predicted membrane protein [Function unknown]; Region: COG1238 977880001260 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 977880001261 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 977880001262 FAD binding domain; Region: FAD_binding_4; pfam01565 977880001263 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 977880001264 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 977880001265 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 977880001266 Cysteine-rich domain; Region: CCG; pfam02754 977880001267 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 977880001268 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 977880001269 HIT family signature motif; other site 977880001270 catalytic residue [active] 977880001271 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 977880001272 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 977880001273 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 977880001274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 977880001275 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 977880001276 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 977880001277 S-adenosylmethionine binding site [chemical binding]; other site 977880001278 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 977880001279 SCP-2 sterol transfer family; Region: SCP2; pfam02036 977880001280 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 977880001281 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 977880001282 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 977880001283 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 977880001284 S-adenosylmethionine binding site [chemical binding]; other site 977880001285 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 977880001286 Na binding site [ion binding]; other site 977880001287 putative glycosylation site [posttranslational modification]; other site 977880001288 putative glycosylation site [posttranslational modification]; other site 977880001289 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 977880001290 Uncharacterized conserved protein [Function unknown]; Region: COG2928 977880001291 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 977880001292 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 977880001293 dimer interface [polypeptide binding]; other site 977880001294 anticodon binding site; other site 977880001295 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 977880001296 homodimer interface [polypeptide binding]; other site 977880001297 motif 1; other site 977880001298 active site 977880001299 motif 2; other site 977880001300 GAD domain; Region: GAD; pfam02938 977880001301 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 977880001302 motif 3; other site 977880001303 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 977880001304 nudix motif; other site 977880001305 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 977880001306 putative catalytic site [active] 977880001307 putative metal binding site [ion binding]; other site 977880001308 putative phosphate binding site [ion binding]; other site 977880001309 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 977880001310 Walker A motif; other site 977880001311 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 977880001312 putative active site [active] 977880001313 catalytic site [active] 977880001314 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 977880001315 putative active site [active] 977880001316 catalytic site [active] 977880001317 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880001318 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880001319 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 977880001320 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 977880001321 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 977880001322 FAD binding site [chemical binding]; other site 977880001323 substrate binding site [chemical binding]; other site 977880001324 catalytic residues [active] 977880001325 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 977880001326 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 977880001327 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 977880001328 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 977880001329 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 977880001330 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 977880001331 substrate binding site [chemical binding]; other site 977880001332 oxyanion hole (OAH) forming residues; other site 977880001333 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 977880001334 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 977880001335 dimer interface [polypeptide binding]; other site 977880001336 active site 977880001337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DegV; COG1307 977880001338 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 977880001339 enoyl-CoA hydratase; Provisional; Region: PRK06688 977880001340 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 977880001341 substrate binding site [chemical binding]; other site 977880001342 oxyanion hole (OAH) forming residues; other site 977880001343 trimer interface [polypeptide binding]; other site 977880001344 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 977880001345 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 977880001346 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 977880001347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880001348 Walker A/P-loop; other site 977880001349 ATP binding site [chemical binding]; other site 977880001350 Q-loop/lid; other site 977880001351 ABC transporter signature motif; other site 977880001352 Walker B; other site 977880001353 D-loop; other site 977880001354 H-loop/switch region; other site 977880001355 NMT1/THI5 like; Region: NMT1; pfam09084 977880001356 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 977880001357 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 977880001358 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 977880001359 Walker A/P-loop; other site 977880001360 ATP binding site [chemical binding]; other site 977880001361 Q-loop/lid; other site 977880001362 ABC transporter signature motif; other site 977880001363 Walker B; other site 977880001364 D-loop; other site 977880001365 H-loop/switch region; other site 977880001366 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 977880001367 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 977880001368 dimer interface [polypeptide binding]; other site 977880001369 conserved gate region; other site 977880001370 putative PBP binding loops; other site 977880001371 ABC-ATPase subunit interface; other site 977880001372 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 977880001373 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880001374 DNA-binding site [nucleotide binding]; DNA binding site 977880001375 UTRA domain; Region: UTRA; pfam07702 977880001376 acyl-CoA synthetase; Validated; Region: PRK06188 977880001377 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 977880001378 putative AMP binding site [chemical binding]; other site 977880001379 putative active site [active] 977880001380 acyl-activating enzyme (AAE) consensus motif; other site 977880001381 putative CoA binding site [chemical binding]; other site 977880001382 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. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 977880001383 active site 977880001384 oxalacetate binding site [chemical binding]; other site 977880001385 citrylCoA binding site [chemical binding]; other site 977880001386 coenzyme A binding site [chemical binding]; other site 977880001387 catalytic triad [active] 977880001388 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 977880001389 Zn binding site [ion binding]; other site 977880001390 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 977880001391 Zn binding site [ion binding]; other site 977880001392 Predicted esterase [General function prediction only]; Region: COG0400 977880001393 putative hydrolase; Provisional; Region: PRK11460 977880001394 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 977880001395 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 977880001396 active site 977880001397 dimer interface [polypeptide binding]; other site 977880001398 metal binding site [ion binding]; metal-binding site 977880001399 YCII-related domain; Region: YCII; cl00999 977880001400 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 977880001401 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : transporter 977880001402 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : transporter 977880001403 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 977880001404 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 977880001405 SnoaL-like domain; Region: SnoaL_2; pfam12680 977880001406 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880001407 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 977880001408 dimerization interface [polypeptide binding]; other site 977880001409 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 977880001410 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 977880001411 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 977880001412 NAD(P) binding site [chemical binding]; other site 977880001413 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 977880001414 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 977880001415 substrate binding pocket [chemical binding]; other site 977880001416 membrane-bound complex binding site; other site 977880001417 hinge residues; other site 977880001418 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 977880001419 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 977880001420 dimer interface [polypeptide binding]; other site 977880001421 conserved gate region; other site 977880001422 putative PBP binding loops; other site 977880001423 ABC-ATPase subunit interface; other site 977880001424 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 977880001425 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 977880001426 dimer interface [polypeptide binding]; other site 977880001427 conserved gate region; other site 977880001428 putative PBP binding loops; other site 977880001429 ABC-ATPase subunit interface; other site 977880001430 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 977880001431 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 977880001432 Walker A/P-loop; other site 977880001433 ATP binding site [chemical binding]; other site 977880001434 Q-loop/lid; other site 977880001435 ABC transporter signature motif; other site 977880001436 Walker B; other site 977880001437 D-loop; other site 977880001438 H-loop/switch region; other site 977880001439 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 977880001440 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 977880001441 putative active site [active] 977880001442 putative dimer interface [polypeptide binding]; other site 977880001443 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 977880001444 tartrate dehydrogenase; Region: TTC; TIGR02089 977880001445 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 977880001446 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 977880001447 MOFRL family; Region: MOFRL; pfam05161 977880001448 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 977880001449 active site 977880001450 substrate binding pocket [chemical binding]; other site 977880001451 dimer interface [polypeptide binding]; other site 977880001452 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 977880001453 OsmC-like protein; Region: OsmC; cl00767 977880001454 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 977880001455 23S rRNA interface [nucleotide binding]; other site 977880001456 L3 interface [polypeptide binding]; other site 977880001457 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 977880001458 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 977880001459 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 977880001460 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 977880001461 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 977880001462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880001463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880001464 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 977880001465 dimerization interface [polypeptide binding]; other site 977880001466 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 977880001467 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 977880001468 Peptidase family M23; Region: Peptidase_M23; pfam01551 977880001469 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 977880001470 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 977880001471 active site 977880001472 HIGH motif; other site 977880001473 dimer interface [polypeptide binding]; other site 977880001474 KMSKS motif; other site 977880001475 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 977880001476 RNA binding surface [nucleotide binding]; other site 977880001477 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 977880001478 putative active site [active] 977880001479 dimerization interface [polypeptide binding]; other site 977880001480 putative tRNAtyr binding site [nucleotide binding]; other site 977880001481 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 977880001482 substrate binding site [chemical binding]; other site 977880001483 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 977880001484 catalytic core [active] 977880001485 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 977880001486 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 977880001487 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 977880001488 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 977880001489 Walker A motif; other site 977880001490 ATP binding site [chemical binding]; other site 977880001491 Walker B motif; other site 977880001492 arginine finger; other site 977880001493 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 977880001494 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 977880001495 RuvA N terminal domain; Region: RuvA_N; pfam01330 977880001496 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 977880001497 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 977880001498 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 977880001499 putative active site [active] 977880001500 catalytic site [active] 977880001501 putative metal binding site [ion binding]; other site 977880001502 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 977880001503 active site 977880001504 putative DNA-binding cleft [nucleotide binding]; other site 977880001505 dimer interface [polypeptide binding]; other site 977880001506 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 977880001507 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 977880001508 purine monophosphate binding site [chemical binding]; other site 977880001509 dimer interface [polypeptide binding]; other site 977880001510 putative catalytic residues [active] 977880001511 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 977880001512 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 977880001513 DNA-binding protein Fis; Provisional; Region: PRK01905 977880001514 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 977880001515 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 977880001516 FMN binding site [chemical binding]; other site 977880001517 active site 977880001518 catalytic residues [active] 977880001519 substrate binding site [chemical binding]; other site 977880001520 hypothetical protein; Provisional; Region: PRK06996 977880001521 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 977880001522 proline aminopeptidase P II; Provisional; Region: PRK10879 977880001523 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 977880001524 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 977880001525 active site 977880001526 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 977880001527 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 977880001528 Substrate binding site; other site 977880001529 metal-binding site 977880001530 Predicted membrane protein [Function unknown]; Region: COG4392 977880001531 AzlC protein; Region: AzlC; pfam03591 977880001532 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 977880001533 Phosphotransferase enzyme family; Region: APH; pfam01636 977880001534 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 977880001535 OstA-like protein; Region: OstA; cl00844 977880001536 OstA-like protein; Region: OstA; cl00844 977880001537 Organic solvent tolerance protein; Region: OstA_C; pfam04453 977880001538 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 977880001539 SurA N-terminal domain; Region: SurA_N; pfam09312 977880001540 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 977880001541 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 977880001542 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 977880001543 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 977880001544 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 977880001545 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 977880001546 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 977880001547 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 977880001548 active site 977880001549 HIGH motif; other site 977880001550 dimer interface [polypeptide binding]; other site 977880001551 KMSKS motif; other site 977880001552 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 977880001553 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880001554 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 977880001555 dimer interface [polypeptide binding]; other site 977880001556 active site 977880001557 metal binding site [ion binding]; metal-binding site 977880001558 glutathione binding site [chemical binding]; other site 977880001559 Protein of unknown function DUF45; Region: DUF45; pfam01863 977880001560 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 977880001561 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 977880001562 putative acyl-acceptor binding pocket; other site 977880001563 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 977880001564 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 977880001565 active site 977880001566 motif I; other site 977880001567 motif II; other site 977880001568 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 977880001569 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 977880001570 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 977880001571 dimer interface [polypeptide binding]; other site 977880001572 motif 1; other site 977880001573 active site 977880001574 motif 2; other site 977880001575 motif 3; other site 977880001576 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 977880001577 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 977880001578 putative active site [active] 977880001579 catalytic triad [active] 977880001580 putative dimer interface [polypeptide binding]; other site 977880001581 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 977880001582 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 977880001583 Transporter associated domain; Region: CorC_HlyC; smart01091 977880001584 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 977880001585 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 977880001586 PhoH-like protein; Region: PhoH; pfam02562 977880001587 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 977880001588 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 977880001589 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 977880001590 FeS/SAM binding site; other site 977880001591 TRAM domain; Region: TRAM; pfam01938 977880001592 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 977880001593 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 977880001594 Cl- selectivity filter; other site 977880001595 Cl- binding residues [ion binding]; other site 977880001596 pore gating glutamate residue; other site 977880001597 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 977880001598 dimer interface [polypeptide binding]; other site 977880001599 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 977880001600 helicase 45; Provisional; Region: PTZ00424 977880001601 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 977880001602 ATP binding site [chemical binding]; other site 977880001603 Mg++ binding site [ion binding]; other site 977880001604 motif III; other site 977880001605 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 977880001606 nucleotide binding region [chemical binding]; other site 977880001607 ATP-binding site [chemical binding]; other site 977880001608 serine/threonine protein kinase; Provisional; Region: PRK11768 977880001609 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 977880001610 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 977880001611 Ligand Binding Site [chemical binding]; other site 977880001612 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880001613 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880001614 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880001615 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 977880001616 active site 977880001617 phosphorylation site [posttranslational modification] 977880001618 intermolecular recognition site; other site 977880001619 dimerization interface [polypeptide binding]; other site 977880001620 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 977880001621 DNA binding residues [nucleotide binding] 977880001622 dimerization interface [polypeptide binding]; other site 977880001623 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 977880001624 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 977880001625 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 977880001626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 977880001627 Peptidase M15; Region: Peptidase_M15_3; cl01194 977880001628 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880001629 putative substrate translocation pore; other site 977880001630 putative solute:sodium symporter small subunit; Region: Na_symport_sm; TIGR03647 977880001631 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 977880001632 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880001633 HAMP domain; Region: HAMP; pfam00672 977880001634 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 977880001635 dimer interface [polypeptide binding]; other site 977880001636 phosphorylation site [posttranslational modification] 977880001637 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 977880001638 ATP binding site [chemical binding]; other site 977880001639 Mg2+ binding site [ion binding]; other site 977880001640 G-X-G motif; other site 977880001641 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 977880001642 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 977880001643 active site 977880001644 phosphorylation site [posttranslational modification] 977880001645 intermolecular recognition site; other site 977880001646 dimerization interface [polypeptide binding]; other site 977880001647 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 977880001648 DNA binding site [nucleotide binding] 977880001649 recombinase A; Provisional; Region: recA; PRK09354 977880001650 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 977880001651 hexamer interface [polypeptide binding]; other site 977880001652 Walker A motif; other site 977880001653 ATP binding site [chemical binding]; other site 977880001654 Walker B motif; other site 977880001655 RecX family; Region: RecX; cl00936 977880001656 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 977880001657 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 977880001658 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 977880001659 CoA-ligase; Region: Ligase_CoA; pfam00549 977880001660 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 977880001661 CoA binding domain; Region: CoA_binding; smart00881 977880001662 CoA-ligase; Region: Ligase_CoA; pfam00549 977880001663 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 977880001664 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 977880001665 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 977880001666 O-Antigen ligase; Region: Wzy_C; pfam04932 977880001667 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 977880001668 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 977880001669 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 977880001670 trimer interface [polypeptide binding]; other site 977880001671 dimer interface [polypeptide binding]; other site 977880001672 putative active site [active] 977880001673 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 977880001674 Peptidase family M48; Region: Peptidase_M48; pfam01435 977880001675 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 977880001676 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 977880001677 SnoaL-like domain; Region: SnoaL_3; pfam13474 977880001678 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 977880001679 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 977880001680 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 977880001681 putative active site [active] 977880001682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 977880001683 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 977880001684 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 977880001685 homodimer interface [polypeptide binding]; other site 977880001686 substrate-cofactor binding pocket; other site 977880001687 catalytic residue [active] 977880001688 DEAD-like helicases superfamily; Region: DEXDc; smart00487 977880001689 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 977880001690 ATP binding site [chemical binding]; other site 977880001691 putative Mg++ binding site [ion binding]; other site 977880001692 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 977880001693 nucleotide binding region [chemical binding]; other site 977880001694 ATP-binding site [chemical binding]; other site 977880001695 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880001696 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 977880001697 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 977880001698 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 977880001699 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 977880001700 Phosphoglycerate kinase; Region: PGK; pfam00162 977880001701 substrate binding site [chemical binding]; other site 977880001702 hinge regions; other site 977880001703 ADP binding site [chemical binding]; other site 977880001704 catalytic site [active] 977880001705 pyruvate kinase; Provisional; Region: PRK05826 977880001706 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 977880001707 domain interfaces; other site 977880001708 active site 977880001709 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 977880001710 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 977880001711 intersubunit interface [polypeptide binding]; other site 977880001712 active site 977880001713 zinc binding site [ion binding]; other site 977880001714 Na+ binding site [ion binding]; other site 977880001715 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 977880001716 ATP binding site [chemical binding]; other site 977880001717 active site 977880001718 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 977880001719 substrate binding site [chemical binding]; other site 977880001720 AIR carboxylase; Region: AIRC; pfam00731 977880001721 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 977880001722 ATP-grasp domain; Region: ATP-grasp; pfam02222 977880001723 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 977880001724 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 977880001725 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 977880001726 AzlC protein; Region: AzlC; cl00570 977880001727 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 977880001728 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880001729 MarR family; Region: MarR_2; pfam12802 977880001730 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 977880001731 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 977880001732 putative ligand binding site [chemical binding]; other site 977880001733 hypothetical protein; Provisional; Region: PRK07538 977880001734 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 977880001735 Predicted membrane protein [Function unknown]; Region: COG4125 977880001736 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 977880001737 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 977880001738 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880001739 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880001740 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 977880001741 dimerization interface [polypeptide binding]; other site 977880001742 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 977880001743 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 977880001744 Protein export membrane protein; Region: SecD_SecF; cl14618 977880001745 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 977880001746 Protein export membrane protein; Region: SecD_SecF; cl14618 977880001747 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 977880001748 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880001749 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 977880001750 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 977880001751 active site 977880001752 phosphorylation site [posttranslational modification] 977880001753 intermolecular recognition site; other site 977880001754 dimerization interface [polypeptide binding]; other site 977880001755 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 977880001756 DNA binding site [nucleotide binding] 977880001757 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 977880001758 HAMP domain; Region: HAMP; pfam00672 977880001759 dimerization interface [polypeptide binding]; other site 977880001760 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 977880001761 dimer interface [polypeptide binding]; other site 977880001762 phosphorylation site [posttranslational modification] 977880001763 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 977880001764 ATP binding site [chemical binding]; other site 977880001765 Mg2+ binding site [ion binding]; other site 977880001766 G-X-G motif; other site 977880001767 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 977880001768 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 977880001769 putative deacylase active site [active] 977880001770 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 977880001771 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 977880001772 active site 977880001773 Int/Topo IB signature motif; other site 977880001774 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 977880001775 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 977880001776 DNA binding site [nucleotide binding] 977880001777 active site 977880001778 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880001779 Predicted permeases [General function prediction only]; Region: COG0679 977880001780 epoxyqueuosine reductase; Region: TIGR00276 977880001781 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 977880001782 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 977880001783 AMIN domain; Region: AMIN; pfam11741 977880001784 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 977880001785 active site 977880001786 metal binding site [ion binding]; metal-binding site 977880001787 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 977880001788 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 977880001789 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880001790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880001791 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 977880001792 putative dimerization interface [polypeptide binding]; other site 977880001793 Methyltransferase domain; Region: Methyltransf_23; pfam13489 977880001794 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 977880001795 Helix-turn-helix domain; Region: HTH_31; pfam13560 977880001796 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 977880001797 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 977880001798 NAD binding site [chemical binding]; other site 977880001799 homodimer interface [polypeptide binding]; other site 977880001800 homotetramer interface [polypeptide binding]; other site 977880001801 active site 977880001802 adenylate kinase; Reviewed; Region: adk; PRK00279 977880001803 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 977880001804 AMP-binding site [chemical binding]; other site 977880001805 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 977880001806 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 977880001807 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 977880001808 Ligand binding site; other site 977880001809 oligomer interface; other site 977880001810 Uncharacterized conserved protein [Function unknown]; Region: COG2835 977880001811 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 977880001812 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 977880001813 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 977880001814 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 977880001815 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 977880001816 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 977880001817 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 977880001818 generic binding surface II; other site 977880001819 generic binding surface I; other site 977880001820 superoxide dismutase; Provisional; Region: PRK10543 977880001821 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 977880001822 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 977880001823 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880001824 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 977880001825 trimer interface [polypeptide binding]; other site 977880001826 eyelet of channel; other site 977880001827 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880001828 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 977880001829 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 977880001830 active site 977880001831 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 977880001832 putative substrate binding pocket [chemical binding]; other site 977880001833 trimer interface [polypeptide binding]; other site 977880001834 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880001835 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 977880001836 trimer interface [polypeptide binding]; other site 977880001837 eyelet of channel; other site 977880001838 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 977880001839 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880001840 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 977880001841 putative dimerization interface [polypeptide binding]; other site 977880001842 Transcriptional regulators [Transcription]; Region: PurR; COG1609 977880001843 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 977880001844 DNA binding site [nucleotide binding] 977880001845 domain linker motif; other site 977880001846 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 977880001847 dimerization interface [polypeptide binding]; other site 977880001848 ligand binding site [chemical binding]; other site 977880001849 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 977880001850 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 977880001851 NAD(P) binding site [chemical binding]; other site 977880001852 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 977880001853 Fe-S cluster binding site [ion binding]; other site 977880001854 active site 977880001855 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 977880001856 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 977880001857 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880001858 Walker A/P-loop; other site 977880001859 ATP binding site [chemical binding]; other site 977880001860 Q-loop/lid; other site 977880001861 ABC transporter signature motif; other site 977880001862 Walker B; other site 977880001863 D-loop; other site 977880001864 H-loop/switch region; other site 977880001865 Response regulator receiver domain; Region: Response_reg; pfam00072 977880001866 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 977880001867 active site 977880001868 phosphorylation site [posttranslational modification] 977880001869 intermolecular recognition site; other site 977880001870 dimerization interface [polypeptide binding]; other site 977880001871 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 977880001872 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 977880001873 Probable Catalytic site; other site 977880001874 metal-binding site 977880001875 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 977880001876 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 977880001877 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 977880001878 NAD binding site [chemical binding]; other site 977880001879 putative substrate binding site 2 [chemical binding]; other site 977880001880 putative substrate binding site 1 [chemical binding]; other site 977880001881 active site 977880001882 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 977880001883 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 977880001884 putative ADP-binding pocket [chemical binding]; other site 977880001885 short chain dehydrogenase; Provisional; Region: PRK07326 977880001886 classical (c) SDRs; Region: SDR_c; cd05233 977880001887 NAD(P) binding site [chemical binding]; other site 977880001888 active site 977880001889 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 977880001890 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 977880001891 active site 977880001892 motif I; other site 977880001893 motif II; other site 977880001894 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 977880001895 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 977880001896 putative active site [active] 977880001897 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 977880001898 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 977880001899 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 977880001900 active site 977880001901 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 977880001902 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 977880001903 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 977880001904 putative active site [active] 977880001905 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 977880001906 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880001907 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 977880001908 Resolvase, N terminal domain; Region: Resolvase; smart00857 977880001909 catalytic residues [active] 977880001910 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 977880001911 DNA-binding interface [nucleotide binding]; DNA binding site 977880001912 Hemerythrin-like domain; Region: Hr-like; cd12108 977880001913 Fe binding site [ion binding]; other site 977880001914 Ferredoxin [Energy production and conversion]; Region: COG1146 977880001915 4Fe-4S binding domain; Region: Fer4; pfam00037 977880001916 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 977880001917 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 977880001918 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880001919 PBP superfamily domain; Region: PBP_like; pfam12727 977880001920 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 977880001921 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 977880001922 putative dimer interface [polypeptide binding]; other site 977880001923 [2Fe-2S] cluster binding site [ion binding]; other site 977880001924 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 977880001925 putative dimer interface [polypeptide binding]; other site 977880001926 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 977880001927 SLBB domain; Region: SLBB; pfam10531 977880001928 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 977880001929 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 977880001930 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 977880001931 catalytic loop [active] 977880001932 iron binding site [ion binding]; other site 977880001933 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 977880001934 4Fe-4S binding domain; Region: Fer4; pfam00037 977880001935 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 977880001936 [4Fe-4S] binding site [ion binding]; other site 977880001937 molybdopterin cofactor binding site; other site 977880001938 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 977880001939 molybdopterin cofactor binding site; other site 977880001940 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 977880001941 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 977880001942 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 977880001943 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 977880001944 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 977880001945 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 977880001946 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 977880001947 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 977880001948 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 977880001949 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 977880001950 Walker A motif; other site 977880001951 ATP binding site [chemical binding]; other site 977880001952 Walker B motif; other site 977880001953 arginine finger; other site 977880001954 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 977880001955 Walker A motif; other site 977880001956 ATP binding site [chemical binding]; other site 977880001957 Walker B motif; other site 977880001958 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 977880001959 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 977880001960 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 977880001961 Protein of unknown function (DUF877); Region: DUF877; pfam05943 977880001962 Protein of unknown function (DUF796); Region: DUF796; pfam05638 977880001963 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 977880001964 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 977880001965 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 977880001966 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 977880001967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 977880001968 PAAR motif; Region: PAAR_motif; pfam05488 977880001969 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 977880001970 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 977880001971 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 977880001972 hypothetical protein; Provisional; Region: PRK08126 977880001973 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 977880001974 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 977880001975 ligand binding site [chemical binding]; other site 977880001976 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 977880001977 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 977880001978 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 977880001979 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 977880001980 Transglycosylase; Region: Transgly; pfam00912 977880001981 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 977880001982 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 977880001983 transmembrane helices; other site 977880001984 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 977880001985 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 977880001986 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 977880001987 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 977880001988 molybdenum-pterin binding domain; Region: Mop; TIGR00638 977880001989 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 977880001990 Lysine efflux permease [General function prediction only]; Region: COG1279 977880001991 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 977880001992 putative active site [active] 977880001993 putative metal binding residues [ion binding]; other site 977880001994 signature motif; other site 977880001995 putative triphosphate binding site [ion binding]; other site 977880001996 dimer interface [polypeptide binding]; other site 977880001997 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880001998 Walker A/P-loop; other site 977880001999 ATP binding site [chemical binding]; other site 977880002000 ABC transporter; Region: ABC_tran; pfam00005 977880002001 Q-loop/lid; other site 977880002002 ABC transporter signature motif; other site 977880002003 Walker B; other site 977880002004 D-loop; other site 977880002005 H-loop/switch region; other site 977880002006 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 977880002007 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 977880002008 putative PBP binding loops; other site 977880002009 ABC-ATPase subunit interface; other site 977880002010 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 977880002011 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 977880002012 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 977880002013 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 977880002014 putative ligand binding site [chemical binding]; other site 977880002015 NAD binding site [chemical binding]; other site 977880002016 catalytic site [active] 977880002017 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 977880002018 Protein of unknown function (DUF330); Region: DUF330; pfam03886 977880002019 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 977880002020 mce related protein; Region: MCE; pfam02470 977880002021 mce related protein; Region: MCE; pfam02470 977880002022 mce related protein; Region: MCE; pfam02470 977880002023 Paraquat-inducible protein A; Region: PqiA; pfam04403 977880002024 Paraquat-inducible protein A; Region: PqiA; pfam04403 977880002025 Domain of unknown function DUF20; Region: UPF0118; pfam01594 977880002026 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 977880002027 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 977880002028 HPP family; Region: HPP; pfam04982 977880002029 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 977880002030 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 977880002031 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 977880002032 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 977880002033 putative DNA binding site [nucleotide binding]; other site 977880002034 putative Zn2+ binding site [ion binding]; other site 977880002035 AsnC family; Region: AsnC_trans_reg; pfam01037 977880002036 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 977880002037 Amidinotransferase; Region: Amidinotransf; cl12043 977880002038 ornithine cyclodeaminase; Validated; Region: PRK07589 977880002039 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 977880002040 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 977880002041 DNA binding residues [nucleotide binding] 977880002042 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 977880002043 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 977880002044 active site 977880002045 phosphorylation site [posttranslational modification] 977880002046 intermolecular recognition site; other site 977880002047 dimerization interface [polypeptide binding]; other site 977880002048 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 977880002049 Walker A motif; other site 977880002050 ATP binding site [chemical binding]; other site 977880002051 Walker B motif; other site 977880002052 arginine finger; other site 977880002053 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880002054 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 977880002055 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 977880002056 dimer interface [polypeptide binding]; other site 977880002057 phosphorylation site [posttranslational modification] 977880002058 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 977880002059 ATP binding site [chemical binding]; other site 977880002060 Mg2+ binding site [ion binding]; other site 977880002061 G-X-G motif; other site 977880002062 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 977880002063 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 977880002064 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 977880002065 putative active site [active] 977880002066 putative metal binding site [ion binding]; other site 977880002067 citrate-proton symporter; Provisional; Region: PRK15075 977880002068 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880002069 putative substrate translocation pore; other site 977880002070 urocanate hydratase; Provisional; Region: PRK05414 977880002071 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 977880002072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880002073 DNA-binding site [nucleotide binding]; DNA binding site 977880002074 UTRA domain; Region: UTRA; pfam07702 977880002075 putative diguanylate cyclase; Provisional; Region: PRK09776 977880002076 MASE1; Region: MASE1; cl17823 977880002077 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 977880002078 putative active site [active] 977880002079 heme pocket [chemical binding]; other site 977880002080 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 977880002081 putative active site [active] 977880002082 heme pocket [chemical binding]; other site 977880002083 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 977880002084 putative active site [active] 977880002085 heme pocket [chemical binding]; other site 977880002086 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880002087 metal binding site [ion binding]; metal-binding site 977880002088 active site 977880002089 I-site; other site 977880002090 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 977880002091 SnoaL-like domain; Region: SnoaL_2; pfam12680 977880002092 Cytochrome c; Region: Cytochrom_C; pfam00034 977880002093 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 977880002094 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 977880002095 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 977880002096 catalytic loop [active] 977880002097 iron binding site [ion binding]; other site 977880002098 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 977880002099 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 977880002100 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 977880002101 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880002102 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880002103 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880002104 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880002105 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. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 977880002106 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 977880002107 active site 977880002108 oxalacetate binding site [chemical binding]; other site 977880002109 citrylCoA binding site [chemical binding]; other site 977880002110 coenzyme A binding site [chemical binding]; other site 977880002111 catalytic triad [active] 977880002112 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 977880002113 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880002114 acyl-activating enzyme (AAE) consensus motif; other site 977880002115 AMP binding site [chemical binding]; other site 977880002116 active site 977880002117 CoA binding site [chemical binding]; other site 977880002118 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 977880002119 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 977880002120 active site 977880002121 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 977880002122 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 977880002123 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880002124 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 977880002125 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 977880002126 substrate binding site [chemical binding]; other site 977880002127 ligand binding site [chemical binding]; other site 977880002128 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 977880002129 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 977880002130 substrate binding site [chemical binding]; other site 977880002131 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880002132 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 977880002133 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 977880002134 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 977880002135 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 977880002136 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 977880002137 TM-ABC transporter signature motif; other site 977880002138 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 977880002139 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 977880002140 TM-ABC transporter signature motif; other site 977880002141 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 977880002142 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 977880002143 Walker A/P-loop; other site 977880002144 ATP binding site [chemical binding]; other site 977880002145 Q-loop/lid; other site 977880002146 ABC transporter signature motif; other site 977880002147 Walker B; other site 977880002148 D-loop; other site 977880002149 H-loop/switch region; other site 977880002150 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 977880002151 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 977880002152 Walker A/P-loop; other site 977880002153 ATP binding site [chemical binding]; other site 977880002154 Q-loop/lid; other site 977880002155 ABC transporter signature motif; other site 977880002156 Walker B; other site 977880002157 D-loop; other site 977880002158 H-loop/switch region; other site 977880002159 SnoaL-like domain; Region: SnoaL_3; pfam13474 977880002160 YciI-like protein; Reviewed; Region: PRK12863 977880002161 Isochorismatase family; Region: Isochorismatase; pfam00857 977880002162 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 977880002163 catalytic triad [active] 977880002164 dimer interface [polypeptide binding]; other site 977880002165 conserved cis-peptide bond; other site 977880002166 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 977880002167 oligomerisation interface [polypeptide binding]; other site 977880002168 mobile loop; other site 977880002169 roof hairpin; other site 977880002170 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 977880002171 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 977880002172 ring oligomerisation interface [polypeptide binding]; other site 977880002173 ATP/Mg binding site [chemical binding]; other site 977880002174 stacking interactions; other site 977880002175 hinge regions; other site 977880002176 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 977880002177 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 977880002178 putative active site [active] 977880002179 putative metal binding site [ion binding]; other site 977880002180 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 977880002181 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 977880002182 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 977880002183 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 977880002184 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 977880002185 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 977880002186 ATP binding site [chemical binding]; other site 977880002187 Walker A motif; other site 977880002188 hexamer interface [polypeptide binding]; other site 977880002189 Walker B motif; other site 977880002190 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 977880002191 active site 977880002192 dimerization interface [polypeptide binding]; other site 977880002193 AAA domain; Region: AAA_31; pfam13614 977880002194 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 977880002195 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 977880002196 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 977880002197 TadE-like protein; Region: TadE; pfam07811 977880002198 TadE-like protein; Region: TadE; pfam07811 977880002199 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 977880002200 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 977880002201 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 977880002202 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 977880002203 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 977880002204 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 977880002205 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 977880002206 Walker A motif; other site 977880002207 ATP binding site [chemical binding]; other site 977880002208 Walker B motif; other site 977880002209 arginine finger; other site 977880002210 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 977880002211 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 977880002212 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 977880002213 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 977880002214 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 977880002215 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 977880002216 Ligand binding site; other site 977880002217 Putative Catalytic site; other site 977880002218 DXD motif; other site 977880002219 Predicted membrane protein [Function unknown]; Region: COG2246 977880002220 GtrA-like protein; Region: GtrA; pfam04138 977880002221 Methyltransferase domain; Region: Methyltransf_23; pfam13489 977880002222 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 977880002223 S-adenosylmethionine binding site [chemical binding]; other site 977880002224 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 977880002225 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 977880002226 Walker A motif; other site 977880002227 ATP binding site [chemical binding]; other site 977880002228 Walker B motif; other site 977880002229 arginine finger; other site 977880002230 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880002231 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880002232 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880002233 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 977880002234 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 977880002235 dimerization interface [polypeptide binding]; other site 977880002236 substrate binding pocket [chemical binding]; other site 977880002237 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 977880002238 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 977880002239 S-adenosylmethionine binding site [chemical binding]; other site 977880002240 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880002241 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880002242 putative substrate translocation pore; other site 977880002243 Phospholipid methyltransferase; Region: PEMT; cl17370 977880002244 Repair protein; Region: Repair_PSII; cl01535 977880002245 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 977880002246 Repair protein; Region: Repair_PSII; pfam04536 977880002247 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 977880002248 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 977880002249 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 977880002250 inhibitor-cofactor binding pocket; inhibition site 977880002251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880002252 catalytic residue [active] 977880002253 Rubredoxin [Energy production and conversion]; Region: COG1773 977880002254 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 977880002255 iron binding site [ion binding]; other site 977880002256 Response regulator receiver domain; Region: Response_reg; pfam00072 977880002257 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 977880002258 active site 977880002259 phosphorylation site [posttranslational modification] 977880002260 intermolecular recognition site; other site 977880002261 dimerization interface [polypeptide binding]; other site 977880002262 Response regulator receiver domain; Region: Response_reg; pfam00072 977880002263 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 977880002264 active site 977880002265 phosphorylation site [posttranslational modification] 977880002266 intermolecular recognition site; other site 977880002267 dimerization interface [polypeptide binding]; other site 977880002268 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 977880002269 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 977880002270 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 977880002271 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880002272 dimer interface [polypeptide binding]; other site 977880002273 putative CheW interface [polypeptide binding]; other site 977880002274 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 977880002275 putative binding surface; other site 977880002276 active site 977880002277 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 977880002278 putative binding surface; other site 977880002279 active site 977880002280 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 977880002281 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 977880002282 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 977880002283 ATP binding site [chemical binding]; other site 977880002284 Mg2+ binding site [ion binding]; other site 977880002285 G-X-G motif; other site 977880002286 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 977880002287 Response regulator receiver domain; Region: Response_reg; pfam00072 977880002288 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 977880002289 active site 977880002290 phosphorylation site [posttranslational modification] 977880002291 intermolecular recognition site; other site 977880002292 dimerization interface [polypeptide binding]; other site 977880002293 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880002294 D-galactonate transporter; Region: 2A0114; TIGR00893 977880002295 putative substrate translocation pore; other site 977880002296 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 977880002297 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 977880002298 putative NAD(P) binding site [chemical binding]; other site 977880002299 active site 977880002300 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 977880002301 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 977880002302 NAD(P) binding site [chemical binding]; other site 977880002303 catalytic residues [active] 977880002304 catalytic residues [active] 977880002305 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 977880002306 dimer interface [polypeptide binding]; other site 977880002307 substrate binding site [chemical binding]; other site 977880002308 metal binding sites [ion binding]; metal-binding site 977880002309 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 977880002310 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 977880002311 Protein of unknown function, DUF482; Region: DUF482; pfam04339 977880002312 NAD synthetase; Reviewed; Region: nadE; PRK02628 977880002313 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 977880002314 multimer interface [polypeptide binding]; other site 977880002315 active site 977880002316 catalytic triad [active] 977880002317 protein interface 1 [polypeptide binding]; other site 977880002318 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 977880002319 homodimer interface [polypeptide binding]; other site 977880002320 NAD binding pocket [chemical binding]; other site 977880002321 ATP binding pocket [chemical binding]; other site 977880002322 Mg binding site [ion binding]; other site 977880002323 active-site loop [active] 977880002324 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 977880002325 Nitrogen regulatory protein P-II; Region: P-II; smart00938 977880002326 Predicted membrane protein [Function unknown]; Region: COG2860 977880002327 UPF0126 domain; Region: UPF0126; pfam03458 977880002328 UPF0126 domain; Region: UPF0126; pfam03458 977880002329 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 977880002330 Smr domain; Region: Smr; pfam01713 977880002331 thioredoxin reductase; Provisional; Region: PRK10262 977880002332 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880002333 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 977880002334 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 977880002335 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 977880002336 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 977880002337 AAA domain; Region: AAA_13; pfam13166 977880002338 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 977880002339 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 977880002340 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 977880002341 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 977880002342 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 977880002343 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 977880002344 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 977880002345 dimer interface [polypeptide binding]; other site 977880002346 conserved gate region; other site 977880002347 putative PBP binding loops; other site 977880002348 ABC-ATPase subunit interface; other site 977880002349 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 977880002350 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 977880002351 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 977880002352 Walker A/P-loop; other site 977880002353 ATP binding site [chemical binding]; other site 977880002354 Q-loop/lid; other site 977880002355 ABC transporter signature motif; other site 977880002356 Walker B; other site 977880002357 D-loop; other site 977880002358 H-loop/switch region; other site 977880002359 TOBE domain; Region: TOBE_2; pfam08402 977880002360 recombination factor protein RarA; Reviewed; Region: PRK13342 977880002361 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 977880002362 Walker A motif; other site 977880002363 ATP binding site [chemical binding]; other site 977880002364 Walker B motif; other site 977880002365 arginine finger; other site 977880002366 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 977880002367 seryl-tRNA synthetase; Provisional; Region: PRK05431 977880002368 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 977880002369 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 977880002370 dimer interface [polypeptide binding]; other site 977880002371 active site 977880002372 motif 1; other site 977880002373 motif 2; other site 977880002374 motif 3; other site 977880002375 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 977880002376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 977880002377 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 977880002378 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 977880002379 active site 977880002380 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 977880002381 Domain of unknown function DUF21; Region: DUF21; pfam01595 977880002382 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 977880002383 Transporter associated domain; Region: CorC_HlyC; smart01091 977880002384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880002385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880002386 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 977880002387 putative dimerization interface [polypeptide binding]; other site 977880002388 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 977880002389 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 977880002390 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 977880002391 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 977880002392 substrate binding pocket [chemical binding]; other site 977880002393 membrane-bound complex binding site; other site 977880002394 hinge residues; other site 977880002395 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 977880002396 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 977880002397 substrate binding pocket [chemical binding]; other site 977880002398 membrane-bound complex binding site; other site 977880002399 hinge residues; other site 977880002400 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 977880002401 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 977880002402 dimer interface [polypeptide binding]; other site 977880002403 conserved gate region; other site 977880002404 putative PBP binding loops; other site 977880002405 ABC-ATPase subunit interface; other site 977880002406 cyanophycin synthetase; Provisional; Region: PRK14016 977880002407 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 977880002408 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 977880002409 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 977880002410 cyanophycin synthetase; Provisional; Region: PRK14016 977880002411 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 977880002412 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 977880002413 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 977880002414 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 977880002415 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 977880002416 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 977880002417 Walker A/P-loop; other site 977880002418 ATP binding site [chemical binding]; other site 977880002419 Q-loop/lid; other site 977880002420 ABC transporter signature motif; other site 977880002421 Walker B; other site 977880002422 D-loop; other site 977880002423 H-loop/switch region; other site 977880002424 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 977880002425 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 977880002426 Fimbrial protein; Region: Fimbrial; pfam00419 977880002427 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 977880002428 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 977880002429 motif II; other site 977880002430 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 977880002431 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 977880002432 S-adenosylmethionine binding site [chemical binding]; other site 977880002433 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 977880002434 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 977880002435 ligand binding site [chemical binding]; other site 977880002436 DNA gyrase subunit A; Validated; Region: PRK05560 977880002437 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 977880002438 CAP-like domain; other site 977880002439 active site 977880002440 primary dimer interface [polypeptide binding]; other site 977880002441 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 977880002442 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 977880002443 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 977880002444 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 977880002445 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 977880002446 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 977880002447 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 977880002448 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 977880002449 homodimer interface [polypeptide binding]; other site 977880002450 substrate-cofactor binding pocket; other site 977880002451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880002452 catalytic residue [active] 977880002453 Chorismate mutase type II; Region: CM_2; cl00693 977880002454 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 977880002455 Prephenate dehydratase; Region: PDT; pfam00800 977880002456 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 977880002457 putative L-Phe binding site [chemical binding]; other site 977880002458 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 977880002459 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 977880002460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880002461 homodimer interface [polypeptide binding]; other site 977880002462 catalytic residue [active] 977880002463 prephenate dehydrogenase; Validated; Region: PRK08507 977880002464 Prephenate dehydrogenase; Region: PDH; pfam02153 977880002465 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 977880002466 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 977880002467 hinge; other site 977880002468 active site 977880002469 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 977880002470 cytidylate kinase; Provisional; Region: cmk; PRK00023 977880002471 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 977880002472 CMP-binding site; other site 977880002473 The sites determining sugar specificity; other site 977880002474 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 977880002475 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 977880002476 RNA binding site [nucleotide binding]; other site 977880002477 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 977880002478 RNA binding site [nucleotide binding]; other site 977880002479 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 977880002480 RNA binding site [nucleotide binding]; other site 977880002481 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 977880002482 RNA binding site [nucleotide binding]; other site 977880002483 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 977880002484 RNA binding site [nucleotide binding]; other site 977880002485 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 977880002486 RNA binding site [nucleotide binding]; other site 977880002487 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 977880002488 IHF dimer interface [polypeptide binding]; other site 977880002489 IHF - DNA interface [nucleotide binding]; other site 977880002490 tetratricopeptide repeat protein; Provisional; Region: PRK11788 977880002491 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 977880002492 binding surface 977880002493 TPR motif; other site 977880002494 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 977880002495 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 977880002496 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 977880002497 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 977880002498 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 977880002499 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 977880002500 putative ribose interaction site [chemical binding]; other site 977880002501 putative ADP binding site [chemical binding]; other site 977880002502 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 977880002503 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 977880002504 NADP binding site [chemical binding]; other site 977880002505 homopentamer interface [polypeptide binding]; other site 977880002506 substrate binding site [chemical binding]; other site 977880002507 active site 977880002508 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 977880002509 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 977880002510 cysteine synthase B; Region: cysM; TIGR01138 977880002511 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 977880002512 dimer interface [polypeptide binding]; other site 977880002513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880002514 catalytic residue [active] 977880002515 Transglycosylase SLT domain; Region: SLT_2; pfam13406 977880002516 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 977880002517 N-acetyl-D-glucosamine binding site [chemical binding]; other site 977880002518 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 977880002519 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 977880002520 putative active site [active] 977880002521 Zn binding site [ion binding]; other site 977880002522 enoyl-CoA hydratase; Validated; Region: PRK08139 977880002523 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 977880002524 substrate binding site [chemical binding]; other site 977880002525 oxyanion hole (OAH) forming residues; other site 977880002526 trimer interface [polypeptide binding]; other site 977880002527 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 977880002528 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 977880002529 Walker A/P-loop; other site 977880002530 ATP binding site [chemical binding]; other site 977880002531 Q-loop/lid; other site 977880002532 ABC transporter signature motif; other site 977880002533 Walker B; other site 977880002534 D-loop; other site 977880002535 H-loop/switch region; other site 977880002536 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 977880002537 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 977880002538 ABC-ATPase subunit interface; other site 977880002539 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 977880002540 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 977880002541 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 977880002542 Ligand binding site [chemical binding]; other site 977880002543 Electron transfer flavoprotein domain; Region: ETF; pfam01012 977880002544 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 977880002545 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 977880002546 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 977880002547 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 977880002548 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 977880002549 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880002550 active site 977880002551 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 977880002552 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 977880002553 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 977880002554 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 977880002555 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 977880002556 putative DNA binding site [nucleotide binding]; other site 977880002557 putative Zn2+ binding site [ion binding]; other site 977880002558 AsnC family; Region: AsnC_trans_reg; pfam01037 977880002559 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 977880002560 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 977880002561 FeS/SAM binding site; other site 977880002562 TM2 domain; Region: TM2; pfam05154 977880002563 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 977880002564 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 977880002565 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 977880002566 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 977880002567 RimM N-terminal domain; Region: RimM; pfam01782 977880002568 PRC-barrel domain; Region: PRC; pfam05239 977880002569 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 977880002570 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 977880002571 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 977880002572 putative active site [active] 977880002573 putative CoA binding site [chemical binding]; other site 977880002574 nudix motif; other site 977880002575 metal binding site [ion binding]; metal-binding site 977880002576 rhodanese superfamily protein; Provisional; Region: PRK05320 977880002577 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 977880002578 active site residue [active] 977880002579 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 977880002580 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 977880002581 putative active site [active] 977880002582 putative PHP Thumb interface [polypeptide binding]; other site 977880002583 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 977880002584 generic binding surface II; other site 977880002585 generic binding surface I; other site 977880002586 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 977880002587 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 977880002588 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 977880002589 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 977880002590 putative metal binding site; other site 977880002591 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 977880002592 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 977880002593 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 977880002594 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 977880002595 Walker A/P-loop; other site 977880002596 ATP binding site [chemical binding]; other site 977880002597 Q-loop/lid; other site 977880002598 ABC transporter signature motif; other site 977880002599 Walker B; other site 977880002600 D-loop; other site 977880002601 H-loop/switch region; other site 977880002602 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 977880002603 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 977880002604 putative active site [active] 977880002605 PA26 p53-induced protein (sestrin); Region: PA26; pfam04636 977880002606 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 977880002607 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 977880002608 HNH endonuclease; Region: HNH_2; pfam13391 977880002609 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 977880002610 envelope glycoprotein C; Provisional; Region: PHA03269 977880002611 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 977880002612 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 977880002613 ATP binding site [chemical binding]; other site 977880002614 putative Mg++ binding site [ion binding]; other site 977880002615 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 977880002616 nucleotide binding region [chemical binding]; other site 977880002617 ATP-binding site [chemical binding]; other site 977880002618 HsdM N-terminal domain; Region: HsdM_N; pfam12161 977880002619 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 977880002620 Methyltransferase domain; Region: Methyltransf_26; pfam13659 977880002621 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 977880002622 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 977880002623 Protein of unknown function DUF91; Region: DUF91; cl00709 977880002624 Uncharacterized conserved protein [Function unknown]; Region: COG3586 977880002625 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 977880002626 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 977880002627 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 977880002628 ATP binding site [chemical binding]; other site 977880002629 putative Mg++ binding site [ion binding]; other site 977880002630 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 977880002631 TPR motif; other site 977880002632 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 977880002633 DNA binding site [nucleotide binding] 977880002634 active site 977880002635 Int/Topo IB signature motif; other site 977880002636 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 977880002637 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 977880002638 ribonuclease G; Provisional; Region: PRK11712 977880002639 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 977880002640 homodimer interface [polypeptide binding]; other site 977880002641 oligonucleotide binding site [chemical binding]; other site 977880002642 Maf-like protein; Region: Maf; pfam02545 977880002643 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 977880002644 active site 977880002645 dimer interface [polypeptide binding]; other site 977880002646 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 977880002647 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 977880002648 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 977880002649 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 977880002650 active site 977880002651 (T/H)XGH motif; other site 977880002652 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 977880002653 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 977880002654 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 977880002655 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 977880002656 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 977880002657 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 977880002658 hypothetical protein; Validated; Region: PRK00110 977880002659 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 977880002660 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 977880002661 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 977880002662 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 977880002663 active site 977880002664 benzoate transport; Region: 2A0115; TIGR00895 977880002665 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880002666 putative substrate translocation pore; other site 977880002667 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880002668 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 977880002669 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 977880002670 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 977880002671 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 977880002672 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 977880002673 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 977880002674 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 977880002675 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 977880002676 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880002677 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 977880002678 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 977880002679 Isochorismatase family; Region: Isochorismatase; pfam00857 977880002680 catalytic triad [active] 977880002681 substrate binding site [chemical binding]; other site 977880002682 domain interfaces; other site 977880002683 conserved cis-peptide bond; other site 977880002684 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 977880002685 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880002686 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 977880002687 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880002688 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 977880002689 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 977880002690 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880002691 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880002692 Transcriptional regulators [Transcription]; Region: MarR; COG1846 977880002693 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 977880002694 EamA-like transporter family; Region: EamA; pfam00892 977880002695 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 977880002696 EamA-like transporter family; Region: EamA; pfam00892 977880002697 short chain dehydrogenase; Provisional; Region: PRK08339 977880002698 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 977880002699 putative NAD(P) binding site [chemical binding]; other site 977880002700 putative active site [active] 977880002701 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 977880002702 active site 977880002703 dimer interfaces [polypeptide binding]; other site 977880002704 catalytic residues [active] 977880002705 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 977880002706 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 977880002707 NADP binding site [chemical binding]; other site 977880002708 dimer interface [polypeptide binding]; other site 977880002709 Uncharacterized conserved protein [Function unknown]; Region: COG3339 977880002710 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 977880002711 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 977880002712 putative ligand binding site [chemical binding]; other site 977880002713 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 977880002714 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 977880002715 TM-ABC transporter signature motif; other site 977880002716 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 977880002717 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 977880002718 TM-ABC transporter signature motif; other site 977880002719 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 977880002720 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 977880002721 Walker A/P-loop; other site 977880002722 ATP binding site [chemical binding]; other site 977880002723 Q-loop/lid; other site 977880002724 ABC transporter signature motif; other site 977880002725 Walker B; other site 977880002726 D-loop; other site 977880002727 H-loop/switch region; other site 977880002728 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 977880002729 Pirin-related protein [General function prediction only]; Region: COG1741 977880002730 Pirin; Region: Pirin; pfam02678 977880002731 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 977880002732 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 977880002733 dimer interface [polypeptide binding]; other site 977880002734 conserved gate region; other site 977880002735 putative PBP binding loops; other site 977880002736 ABC-ATPase subunit interface; other site 977880002737 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 977880002738 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 977880002739 dimer interface [polypeptide binding]; other site 977880002740 conserved gate region; other site 977880002741 ABC-ATPase subunit interface; other site 977880002742 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 977880002743 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 977880002744 Walker A/P-loop; other site 977880002745 ATP binding site [chemical binding]; other site 977880002746 Q-loop/lid; other site 977880002747 ABC transporter signature motif; other site 977880002748 Walker B; other site 977880002749 D-loop; other site 977880002750 H-loop/switch region; other site 977880002751 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 977880002752 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 977880002753 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 977880002754 active site 977880002755 metal binding site [ion binding]; metal-binding site 977880002756 interdomain interaction site; other site 977880002757 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 977880002758 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 977880002759 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 977880002760 non-specific DNA binding site [nucleotide binding]; other site 977880002761 salt bridge; other site 977880002762 sequence-specific DNA binding site [nucleotide binding]; other site 977880002763 tail protein; Provisional; Region: D; PHA02561 977880002764 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 977880002765 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 977880002766 Evidence 2b : Function of strongly homologous gene; PubMedId : 12426340; Product type h : extrachromosomal origin 977880002767 Evidence 2b : Function of strongly homologous gene; PubMedId : 12426340; Product type h : extrachromosomal origin 977880002768 major tail tube protein; Provisional; Region: FII; PHA02600 977880002769 major tail sheath protein; Provisional; Region: FI; PHA02560 977880002770 Phage Tail Collar Domain; Region: Collar; pfam07484 977880002771 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 977880002772 baseplate assembly protein; Provisional; Region: J; PHA02568 977880002773 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 977880002774 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 977880002775 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 977880002776 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 977880002777 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 977880002778 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 977880002779 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 977880002780 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 977880002781 Protein of unknown function (DUF754); Region: DUF754; pfam05449 977880002782 Phage Tail Protein X; Region: Phage_tail_X; cl02088 977880002783 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 977880002784 terminase endonuclease subunit; Provisional; Region: M; PHA02537 977880002785 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 977880002786 capsid protein; Provisional; Region: N; PHA02538 977880002787 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 977880002788 terminase ATPase subunit; Provisional; Region: P; PHA02535 977880002789 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 977880002790 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 977880002791 portal vertex protein; Provisional; Region: Q; PHA02536 977880002792 Phage portal protein; Region: Phage_portal; pfam04860 977880002793 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 977880002794 Domain of unknown function (DUF955); Region: DUF955; cl01076 977880002795 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 977880002796 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 977880002797 non-specific DNA binding site [nucleotide binding]; other site 977880002798 salt bridge; other site 977880002799 sequence-specific DNA binding site [nucleotide binding]; other site 977880002800 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 977880002801 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 977880002802 active site 977880002803 Int/Topo IB signature motif; other site 977880002804 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 977880002805 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 977880002806 FeS/SAM binding site; other site 977880002807 HemN C-terminal domain; Region: HemN_C; pfam06969 977880002808 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 977880002809 active site 977880002810 dimerization interface [polypeptide binding]; other site 977880002811 ribonuclease PH; Reviewed; Region: rph; PRK00173 977880002812 Ribonuclease PH; Region: RNase_PH_bact; cd11362 977880002813 hexamer interface [polypeptide binding]; other site 977880002814 active site 977880002815 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 977880002816 active site 977880002817 Protein kinase domain; Region: Pkinase; pfam00069 977880002818 Catalytic domain of Protein Kinases; Region: PKc; cd00180 977880002819 active site 977880002820 ATP binding site [chemical binding]; other site 977880002821 substrate binding site [chemical binding]; other site 977880002822 activation loop (A-loop); other site 977880002823 hypothetical protein; Provisional; Region: PRK11820 977880002824 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 977880002825 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 977880002826 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 977880002827 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 977880002828 catalytic site [active] 977880002829 G-X2-G-X-G-K; other site 977880002830 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 977880002831 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 977880002832 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 977880002833 Zn2+ binding site [ion binding]; other site 977880002834 Mg2+ binding site [ion binding]; other site 977880002835 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 977880002836 synthetase active site [active] 977880002837 NTP binding site [chemical binding]; other site 977880002838 metal binding site [ion binding]; metal-binding site 977880002839 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 977880002840 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 977880002841 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 977880002842 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 977880002843 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 977880002844 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 977880002845 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880002846 DNA-binding site [nucleotide binding]; DNA binding site 977880002847 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 977880002848 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 977880002849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880002850 homodimer interface [polypeptide binding]; other site 977880002851 catalytic residue [active] 977880002852 Uncharacterized conserved protein [Function unknown]; Region: COG2128 977880002853 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 977880002854 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 977880002855 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 977880002856 Domain of unknown function (DUF333); Region: DUF333; pfam03891 977880002857 PAS domain; Region: PAS_9; pfam13426 977880002858 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 977880002859 PAS domain; Region: PAS_9; pfam13426 977880002860 putative active site [active] 977880002861 heme pocket [chemical binding]; other site 977880002862 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 977880002863 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880002864 metal binding site [ion binding]; metal-binding site 977880002865 active site 977880002866 I-site; other site 977880002867 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 977880002868 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880002869 DNA-binding site [nucleotide binding]; DNA binding site 977880002870 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 977880002871 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880002872 homodimer interface [polypeptide binding]; other site 977880002873 catalytic residue [active] 977880002874 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 977880002875 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 977880002876 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 977880002877 Methyltransferase domain; Region: Methyltransf_32; pfam13679 977880002878 Protein of unknown function (DUF342); Region: DUF342; pfam03961 977880002879 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 977880002880 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 977880002881 putative active site [active] 977880002882 putative metal binding site [ion binding]; other site 977880002883 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 977880002884 FAD binding domain; Region: FAD_binding_4; pfam01565 977880002885 Berberine and berberine like; Region: BBE; pfam08031 977880002886 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 977880002887 F subunit of K+-transporting ATPase (Potass_KdpF); Region: Potass_KdpF; pfam09604 977880002888 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 977880002889 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 977880002890 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 977880002891 Soluble P-type ATPase [General function prediction only]; Region: COG4087 977880002892 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 977880002893 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 977880002894 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 977880002895 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 977880002896 Ligand Binding Site [chemical binding]; other site 977880002897 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 977880002898 GAF domain; Region: GAF_3; pfam13492 977880002899 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 977880002900 phosphorylation site [posttranslational modification] 977880002901 dimer interface [polypeptide binding]; other site 977880002902 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 977880002903 ATP binding site [chemical binding]; other site 977880002904 Mg2+ binding site [ion binding]; other site 977880002905 G-X-G motif; other site 977880002906 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 977880002907 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 977880002908 active site 977880002909 phosphorylation site [posttranslational modification] 977880002910 intermolecular recognition site; other site 977880002911 dimerization interface [polypeptide binding]; other site 977880002912 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 977880002913 DNA binding site [nucleotide binding] 977880002914 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 977880002915 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 977880002916 AMP binding site [chemical binding]; other site 977880002917 metal binding site [ion binding]; metal-binding site 977880002918 active site 977880002919 aminopeptidase N; Provisional; Region: pepN; PRK14015 977880002920 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 977880002921 active site 977880002922 Zn binding site [ion binding]; other site 977880002923 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 977880002924 malic enzyme; Reviewed; Region: PRK12862 977880002925 Malic enzyme, N-terminal domain; Region: malic; pfam00390 977880002926 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 977880002927 putative NAD(P) binding site [chemical binding]; other site 977880002928 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 977880002929 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880002930 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 977880002931 trimer interface [polypeptide binding]; other site 977880002932 eyelet of channel; other site 977880002933 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 977880002934 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 977880002935 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 977880002936 active site 977880002937 catalytic site [active] 977880002938 tetramer interface [polypeptide binding]; other site 977880002939 xanthine permease; Region: pbuX; TIGR03173 977880002940 Transcriptional regulators [Transcription]; Region: GntR; COG1802 977880002941 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880002942 DNA-binding site [nucleotide binding]; DNA binding site 977880002943 FCD domain; Region: FCD; pfam07729 977880002944 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 977880002945 active site 977880002946 homotetramer interface [polypeptide binding]; other site 977880002947 Predicted membrane protein [Function unknown]; Region: COG3748 977880002948 Protein of unknown function (DUF989); Region: DUF989; pfam06181 977880002949 Cytochrome c; Region: Cytochrom_C; pfam00034 977880002950 Predicted membrane protein [Function unknown]; Region: COG2119 977880002951 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 977880002952 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 977880002953 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 977880002954 Fatty acid desaturase; Region: FA_desaturase; pfam00487 977880002955 putative di-iron ligands [ion binding]; other site 977880002956 guanine deaminase; Provisional; Region: PRK09228 977880002957 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 977880002958 active site 977880002959 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 977880002960 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 977880002961 active site 977880002962 purine riboside binding site [chemical binding]; other site 977880002963 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 977880002964 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 977880002965 XdhC Rossmann domain; Region: XdhC_C; pfam13478 977880002966 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 977880002967 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 977880002968 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880002969 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 977880002970 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 977880002971 catalytic loop [active] 977880002972 iron binding site [ion binding]; other site 977880002973 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 977880002974 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 977880002975 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880002976 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880002977 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 977880002978 putative substrate binding pocket [chemical binding]; other site 977880002979 putative dimerization interface [polypeptide binding]; other site 977880002980 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 977880002981 PBP superfamily domain; Region: PBP_like_2; pfam12849 977880002982 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 977880002983 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]; Region: COG1910 977880002984 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 977880002985 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 977880002986 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 977880002987 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 977880002988 apolar tunnel; other site 977880002989 heme binding site [chemical binding]; other site 977880002990 dimerization interface [polypeptide binding]; other site 977880002991 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 977880002992 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 977880002993 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880002994 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880002995 Bacterial transcriptional repressor; Region: TetR; pfam13972 977880002996 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 977880002997 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880002998 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 977880002999 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 977880003000 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 977880003001 putative active site [active] 977880003002 putative metal binding site [ion binding]; other site 977880003003 RDD family; Region: RDD; pfam06271 977880003004 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 977880003005 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 977880003006 RNA polymerase factor sigma-70; Validated; Region: PRK09047 977880003007 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 977880003008 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 977880003009 DNA binding residues [nucleotide binding] 977880003010 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 977880003011 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 977880003012 PYR/PP interface [polypeptide binding]; other site 977880003013 dimer interface [polypeptide binding]; other site 977880003014 TPP binding site [chemical binding]; other site 977880003015 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 977880003016 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 977880003017 TPP-binding site [chemical binding]; other site 977880003018 dimer interface [polypeptide binding]; other site 977880003019 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 977880003020 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 977880003021 putative valine binding site [chemical binding]; other site 977880003022 dimer interface [polypeptide binding]; other site 977880003023 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 977880003024 ketol-acid reductoisomerase; Provisional; Region: PRK05479 977880003025 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 977880003026 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 977880003027 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 977880003028 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 977880003029 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 977880003030 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 977880003031 BON domain; Region: BON; pfam04972 977880003032 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 977880003033 2-isopropylmalate synthase; Validated; Region: PRK00915 977880003034 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 977880003035 active site 977880003036 catalytic residues [active] 977880003037 metal binding site [ion binding]; metal-binding site 977880003038 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 977880003039 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 977880003040 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 977880003041 putative ligand binding site [chemical binding]; other site 977880003042 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 977880003043 16S/18S rRNA binding site [nucleotide binding]; other site 977880003044 S13e-L30e interaction site [polypeptide binding]; other site 977880003045 25S rRNA binding site [nucleotide binding]; other site 977880003046 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 977880003047 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 977880003048 RNase E interface [polypeptide binding]; other site 977880003049 trimer interface [polypeptide binding]; other site 977880003050 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 977880003051 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 977880003052 RNase E interface [polypeptide binding]; other site 977880003053 trimer interface [polypeptide binding]; other site 977880003054 active site 977880003055 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 977880003056 putative nucleic acid binding region [nucleotide binding]; other site 977880003057 G-X-X-G motif; other site 977880003058 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 977880003059 RNA binding site [nucleotide binding]; other site 977880003060 domain interface; other site 977880003061 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 977880003062 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 977880003063 NAD(P) binding site [chemical binding]; other site 977880003064 triosephosphate isomerase; Provisional; Region: PRK14567 977880003065 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 977880003066 substrate binding site [chemical binding]; other site 977880003067 dimer interface [polypeptide binding]; other site 977880003068 catalytic triad [active] 977880003069 Preprotein translocase SecG subunit; Region: SecG; pfam03840 977880003070 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 977880003071 NADH dehydrogenase subunit B; Validated; Region: PRK06411 977880003072 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 977880003073 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 977880003074 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 977880003075 NADH dehydrogenase subunit D; Validated; Region: PRK06075 977880003076 NADH dehydrogenase subunit E; Validated; Region: PRK07539 977880003077 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 977880003078 putative dimer interface [polypeptide binding]; other site 977880003079 [2Fe-2S] cluster binding site [ion binding]; other site 977880003080 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 977880003081 SLBB domain; Region: SLBB; pfam10531 977880003082 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 977880003083 NADH dehydrogenase subunit G; Validated; Region: PRK09129 977880003084 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 977880003085 catalytic loop [active] 977880003086 iron binding site [ion binding]; other site 977880003087 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 977880003088 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 977880003089 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; cd02775 977880003090 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 977880003091 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 977880003092 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 977880003093 4Fe-4S binding domain; Region: Fer4; cl02805 977880003094 4Fe-4S binding domain; Region: Fer4; pfam00037 977880003095 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 977880003096 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 977880003097 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 977880003098 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 977880003099 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 977880003100 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 977880003101 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 977880003102 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 977880003103 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 977880003104 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 977880003105 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 977880003106 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 977880003107 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 977880003108 dimer interface [polypeptide binding]; other site 977880003109 ADP-ribose binding site [chemical binding]; other site 977880003110 active site 977880003111 nudix motif; other site 977880003112 metal binding site [ion binding]; metal-binding site 977880003113 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 977880003114 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 977880003115 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 977880003116 FAD binding site [chemical binding]; other site 977880003117 substrate binding site [chemical binding]; other site 977880003118 catalytic base [active] 977880003119 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 977880003120 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 977880003121 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 977880003122 active site 977880003123 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 977880003124 putative active site [active] 977880003125 putative catalytic site [active] 977880003126 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 977880003127 putative active site [active] 977880003128 putative catalytic site [active] 977880003129 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 977880003130 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 977880003131 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 977880003132 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 977880003133 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 977880003134 D-pathway; other site 977880003135 Putative ubiquinol binding site [chemical binding]; other site 977880003136 Low-spin heme (heme b) binding site [chemical binding]; other site 977880003137 Putative water exit pathway; other site 977880003138 Binuclear center (heme o3/CuB) [ion binding]; other site 977880003139 K-pathway; other site 977880003140 Putative proton exit pathway; other site 977880003141 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 977880003142 Subunit I/III interface [polypeptide binding]; other site 977880003143 Subunit III/IV interface [polypeptide binding]; other site 977880003144 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 977880003145 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 977880003146 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 977880003147 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 977880003148 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 977880003149 putative ligand binding site [chemical binding]; other site 977880003150 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 977880003151 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 977880003152 TM-ABC transporter signature motif; other site 977880003153 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 977880003154 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 977880003155 TM-ABC transporter signature motif; other site 977880003156 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 977880003157 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 977880003158 Walker A/P-loop; other site 977880003159 ATP binding site [chemical binding]; other site 977880003160 Q-loop/lid; other site 977880003161 ABC transporter signature motif; other site 977880003162 Walker B; other site 977880003163 D-loop; other site 977880003164 H-loop/switch region; other site 977880003165 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 977880003166 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 977880003167 Walker A/P-loop; other site 977880003168 ATP binding site [chemical binding]; other site 977880003169 Q-loop/lid; other site 977880003170 ABC transporter signature motif; other site 977880003171 Walker B; other site 977880003172 D-loop; other site 977880003173 H-loop/switch region; other site 977880003174 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 977880003175 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 977880003176 alpha-gamma subunit interface [polypeptide binding]; other site 977880003177 beta-gamma subunit interface [polypeptide binding]; other site 977880003178 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 977880003179 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 977880003180 gamma-beta subunit interface [polypeptide binding]; other site 977880003181 alpha-beta subunit interface [polypeptide binding]; other site 977880003182 urease subunit alpha; Reviewed; Region: ureC; PRK13207 977880003183 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 977880003184 subunit interactions [polypeptide binding]; other site 977880003185 active site 977880003186 flap region; other site 977880003187 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 977880003188 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 977880003189 dimer interface [polypeptide binding]; other site 977880003190 catalytic residues [active] 977880003191 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 977880003192 UreF; Region: UreF; pfam01730 977880003193 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 977880003194 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 977880003195 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 977880003196 non-specific DNA binding site [nucleotide binding]; other site 977880003197 salt bridge; other site 977880003198 sequence-specific DNA binding site [nucleotide binding]; other site 977880003199 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 977880003200 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 977880003201 C-terminal domain interface [polypeptide binding]; other site 977880003202 GSH binding site (G-site) [chemical binding]; other site 977880003203 dimer interface [polypeptide binding]; other site 977880003204 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 977880003205 N-terminal domain interface [polypeptide binding]; other site 977880003206 putative dimer interface [polypeptide binding]; other site 977880003207 active site 977880003208 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880003209 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 977880003210 FAD binding site [chemical binding]; other site 977880003211 substrate binding site [chemical binding]; other site 977880003212 catalytic base [active] 977880003213 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 977880003214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880003215 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 977880003216 substrate binding pocket [chemical binding]; other site 977880003217 dimerization interface [polypeptide binding]; other site 977880003218 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 977880003219 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 977880003220 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 977880003221 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 977880003222 DNA binding residues [nucleotide binding] 977880003223 von Willebrand factor; Region: vWF_A; pfam12450 977880003224 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 977880003225 VWA subgroup: 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...; Region: vWA_subgroup; cd01465 977880003226 metal ion-dependent adhesion site (MIDAS); other site 977880003227 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 977880003228 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 977880003229 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 977880003230 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 977880003231 Phosphotransferase enzyme family; Region: APH; pfam01636 977880003232 putative active site [active] 977880003233 putative substrate binding site [chemical binding]; other site 977880003234 ATP binding site [chemical binding]; other site 977880003235 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 977880003236 catalytic core [active] 977880003237 enoyl-CoA hydratase; Provisional; Region: PRK07511 977880003238 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 977880003239 substrate binding site [chemical binding]; other site 977880003240 oxyanion hole (OAH) forming residues; other site 977880003241 trimer interface [polypeptide binding]; other site 977880003242 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 977880003243 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 977880003244 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 977880003245 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 977880003246 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 977880003247 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 977880003248 C-terminal domain interface [polypeptide binding]; other site 977880003249 GSH binding site (G-site) [chemical binding]; other site 977880003250 dimer interface [polypeptide binding]; other site 977880003251 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 977880003252 putative N-terminal domain interface [polypeptide binding]; other site 977880003253 putative dimer interface [polypeptide binding]; other site 977880003254 putative substrate binding pocket (H-site) [chemical binding]; other site 977880003255 methionine aminotransferase; Validated; Region: PRK09082 977880003256 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 977880003257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880003258 homodimer interface [polypeptide binding]; other site 977880003259 catalytic residue [active] 977880003260 PIN domain; Region: PIN_3; pfam13470 977880003261 hypothetical protein; Validated; Region: PRK02101 977880003262 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 977880003263 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 977880003264 putative active site [active] 977880003265 Zn binding site [ion binding]; other site 977880003266 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 977880003267 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880003268 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 977880003269 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880003270 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 977880003271 dimerization interface [polypeptide binding]; other site 977880003272 substrate binding pocket [chemical binding]; other site 977880003273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 977880003274 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 977880003275 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 977880003276 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 977880003277 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 977880003278 Walker A motif; other site 977880003279 ATP binding site [chemical binding]; other site 977880003280 Walker B motif; other site 977880003281 arginine finger; other site 977880003282 Cytochrome c553 [Energy production and conversion]; Region: COG2863 977880003283 Cytochrome c; Region: Cytochrom_C; cl11414 977880003284 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 977880003285 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 977880003286 Methyltransferase domain; Region: Methyltransf_23; pfam13489 977880003287 Methyltransferase domain; Region: Methyltransf_18; pfam12847 977880003288 protease TldD; Provisional; Region: tldD; PRK10735 977880003289 nitrilase; Region: PLN02798 977880003290 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 977880003291 putative active site [active] 977880003292 catalytic triad [active] 977880003293 dimer interface [polypeptide binding]; other site 977880003294 Predicted membrane protein [Function unknown]; Region: COG3164 977880003295 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 977880003296 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 977880003297 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 977880003298 metal binding triad; other site 977880003299 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 977880003300 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 977880003301 metal binding triad; other site 977880003302 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 977880003303 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 977880003304 active site 977880003305 catalytic triad [active] 977880003306 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 977880003307 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 977880003308 Walker A/P-loop; other site 977880003309 ATP binding site [chemical binding]; other site 977880003310 Q-loop/lid; other site 977880003311 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 977880003312 ABC transporter signature motif; other site 977880003313 Walker B; other site 977880003314 D-loop; other site 977880003315 H-loop/switch region; other site 977880003316 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 977880003317 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 977880003318 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 977880003319 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 977880003320 ferrochelatase; Reviewed; Region: hemH; PRK00035 977880003321 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 977880003322 C-terminal domain interface [polypeptide binding]; other site 977880003323 active site 977880003324 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 977880003325 active site 977880003326 N-terminal domain interface [polypeptide binding]; other site 977880003327 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 977880003328 RNA binding surface [nucleotide binding]; other site 977880003329 GrpE; Region: GrpE; pfam01025 977880003330 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 977880003331 dimer interface [polypeptide binding]; other site 977880003332 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 977880003333 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 977880003334 catalytic residues [active] 977880003335 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 977880003336 substrate binding site [chemical binding]; other site 977880003337 dimerization interface [polypeptide binding]; other site 977880003338 active site 977880003339 calcium binding site [ion binding]; other site 977880003340 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 977880003341 EamA-like transporter family; Region: EamA; pfam00892 977880003342 Nitroreductase-like family 5. 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_5; cd02148 977880003343 putative FMN binding site [chemical binding]; other site 977880003344 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 977880003345 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880003346 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 977880003347 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 977880003348 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880003349 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880003350 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 977880003351 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 977880003352 minor groove reading motif; other site 977880003353 helix-hairpin-helix signature motif; other site 977880003354 substrate binding pocket [chemical binding]; other site 977880003355 active site 977880003356 ferredoxin; Provisional; Region: PRK06991 977880003357 Putative Fe-S cluster; Region: FeS; pfam04060 977880003358 4Fe-4S binding domain; Region: Fer4; pfam00037 977880003359 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880003360 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880003361 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 977880003362 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 977880003363 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 977880003364 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 977880003365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880003366 homodimer interface [polypeptide binding]; other site 977880003367 catalytic residue [active] 977880003368 excinuclease ABC subunit B; Provisional; Region: PRK05298 977880003369 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 977880003370 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 977880003371 ATP-binding site [chemical binding]; other site 977880003372 ATP binding site [chemical binding]; other site 977880003373 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 977880003374 nucleotide binding region [chemical binding]; other site 977880003375 ATP-binding site [chemical binding]; other site 977880003376 Ultra-violet resistance protein B; Region: UvrB; pfam12344 977880003377 UvrB/uvrC motif; Region: UVR; pfam02151 977880003378 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 977880003379 Low molecular weight phosphatase family; Region: LMWPc; cd00115 977880003380 active site 977880003381 Site-specific recombinase; Region: SpecificRecomb; pfam10136 977880003382 Predicted transcriptional regulator [Transcription]; Region: COG1959 977880003383 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 977880003384 cysteine desulfurase; Provisional; Region: PRK14012 977880003385 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 977880003386 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 977880003387 catalytic residue [active] 977880003388 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 977880003389 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 977880003390 trimerization site [polypeptide binding]; other site 977880003391 active site 977880003392 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 977880003393 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 977880003394 co-chaperone HscB; Provisional; Region: hscB; PRK03578 977880003395 DnaJ domain; Region: DnaJ; pfam00226 977880003396 HSP70 interaction site [polypeptide binding]; other site 977880003397 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 977880003398 chaperone protein HscA; Provisional; Region: hscA; PRK05183 977880003399 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 977880003400 nucleotide binding site [chemical binding]; other site 977880003401 putative NEF/HSP70 interaction site [polypeptide binding]; other site 977880003402 SBD interface [polypeptide binding]; other site 977880003403 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 977880003404 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 977880003405 catalytic loop [active] 977880003406 iron binding site [ion binding]; other site 977880003407 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 977880003408 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 977880003409 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 977880003410 dimer interface [polypeptide binding]; other site 977880003411 putative anticodon binding site; other site 977880003412 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 977880003413 motif 1; other site 977880003414 active site 977880003415 motif 2; other site 977880003416 motif 3; other site 977880003417 short chain dehydrogenase; Provisional; Region: PRK07023 977880003418 sepiapterin reductase (SPR)-like, classical (c) SDRs; Region: SPR-like_SDR_c; cd05367 977880003419 NADP binding site [chemical binding]; other site 977880003420 homodimer interface [polypeptide binding]; other site 977880003421 active site 977880003422 peptide chain release factor 2; Validated; Region: prfB; PRK00578 977880003423 This domain is found in peptide chain release factors; Region: PCRF; smart00937 977880003424 RF-1 domain; Region: RF-1; pfam00472 977880003425 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 977880003426 Peptidase family M23; Region: Peptidase_M23; pfam01551 977880003427 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 977880003428 DHH family; Region: DHH; pfam01368 977880003429 DHHA1 domain; Region: DHHA1; pfam02272 977880003430 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 977880003431 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 977880003432 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 977880003433 FtsX-like permease family; Region: FtsX; pfam02687 977880003434 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 977880003435 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 977880003436 Walker A/P-loop; other site 977880003437 ATP binding site [chemical binding]; other site 977880003438 Q-loop/lid; other site 977880003439 ABC transporter signature motif; other site 977880003440 Walker B; other site 977880003441 D-loop; other site 977880003442 H-loop/switch region; other site 977880003443 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 977880003444 active site 977880003445 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 977880003446 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 977880003447 Competence protein; Region: Competence; pfam03772 977880003448 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 977880003449 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 977880003450 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 977880003451 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 977880003452 putative active site [active] 977880003453 6-phosphogluconate dehydratase; Region: edd; TIGR01196 977880003454 phosphogluconate dehydratase; Validated; Region: PRK09054 977880003455 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 977880003456 ATP-binding site [chemical binding]; other site 977880003457 Gluconate-6-phosphate binding site [chemical binding]; other site 977880003458 Shikimate kinase; Region: SKI; pfam01202 977880003459 Uncharacterized conserved protein [Function unknown]; Region: COG2308 977880003460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 977880003461 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 977880003462 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 977880003463 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 977880003464 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 977880003465 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 977880003466 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 977880003467 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880003468 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 977880003469 CTP synthetase; Validated; Region: pyrG; PRK05380 977880003470 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 977880003471 Catalytic site [active] 977880003472 active site 977880003473 UTP binding site [chemical binding]; other site 977880003474 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 977880003475 active site 977880003476 putative oxyanion hole; other site 977880003477 catalytic triad [active] 977880003478 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 977880003479 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 977880003480 Uncharacterized conserved protein [Function unknown]; Region: COG5470 977880003481 enolase; Provisional; Region: eno; PRK00077 977880003482 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 977880003483 dimer interface [polypeptide binding]; other site 977880003484 metal binding site [ion binding]; metal-binding site 977880003485 substrate binding pocket [chemical binding]; other site 977880003486 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 977880003487 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 977880003488 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 977880003489 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 977880003490 dimerization interface [polypeptide binding]; other site 977880003491 domain crossover interface; other site 977880003492 redox-dependent activation switch; other site 977880003493 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 977880003494 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 977880003495 trimer interface [polypeptide binding]; other site 977880003496 putative metal binding site [ion binding]; other site 977880003497 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 977880003498 dinuclear metal binding motif [ion binding]; other site 977880003499 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 977880003500 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 977880003501 active site 977880003502 acyl-activating enzyme (AAE) consensus motif; other site 977880003503 putative CoA binding site [chemical binding]; other site 977880003504 AMP binding site [chemical binding]; other site 977880003505 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880003506 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 977880003507 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 977880003508 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880003509 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 977880003510 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 977880003511 active site 977880003512 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 977880003513 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 977880003514 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 977880003515 Peptidase family M50; Region: Peptidase_M50; pfam02163 977880003516 active site 977880003517 putative substrate binding region [chemical binding]; other site 977880003518 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 977880003519 S-adenosylmethionine binding site [chemical binding]; other site 977880003520 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 977880003521 dihydrodipicolinate synthase; Region: dapA; TIGR00674 977880003522 dimer interface [polypeptide binding]; other site 977880003523 active site 977880003524 catalytic residue [active] 977880003525 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 977880003526 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 977880003527 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 977880003528 Uncharacterized conserved protein [Function unknown]; Region: COG2850 977880003529 Cupin-like domain; Region: Cupin_8; pfam13621 977880003530 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 977880003531 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 977880003532 MutS domain I; Region: MutS_I; pfam01624 977880003533 MutS domain II; Region: MutS_II; pfam05188 977880003534 MutS domain III; Region: MutS_III; pfam05192 977880003535 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 977880003536 Walker A/P-loop; other site 977880003537 ATP binding site [chemical binding]; other site 977880003538 Q-loop/lid; other site 977880003539 ABC transporter signature motif; other site 977880003540 Walker B; other site 977880003541 D-loop; other site 977880003542 H-loop/switch region; other site 977880003543 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 977880003544 Ligand Binding Site [chemical binding]; other site 977880003545 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 977880003546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 977880003547 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 977880003548 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 977880003549 active site 977880003550 dimerization interface [polypeptide binding]; other site 977880003551 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 977880003552 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 977880003553 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 977880003554 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 977880003555 trimer interface [polypeptide binding]; other site 977880003556 active site 977880003557 substrate binding site [chemical binding]; other site 977880003558 CoA binding site [chemical binding]; other site 977880003559 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 977880003560 putative active site [active] 977880003561 putative metal binding site [ion binding]; other site 977880003562 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 977880003563 substrate binding site [chemical binding]; other site 977880003564 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 977880003565 substrate binding site [chemical binding]; other site 977880003566 TPR repeat; Region: TPR_11; pfam13414 977880003567 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 977880003568 binding surface 977880003569 TPR motif; other site 977880003570 TPR repeat; Region: TPR_11; pfam13414 977880003571 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 977880003572 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 977880003573 active site 977880003574 HIGH motif; other site 977880003575 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 977880003576 KMSKS motif; other site 977880003577 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 977880003578 tRNA binding surface [nucleotide binding]; other site 977880003579 anticodon binding site; other site 977880003580 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 977880003581 endonuclease III; Region: ENDO3c; smart00478 977880003582 minor groove reading motif; other site 977880003583 helix-hairpin-helix signature motif; other site 977880003584 substrate binding pocket [chemical binding]; other site 977880003585 active site 977880003586 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 977880003587 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 977880003588 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 977880003589 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 977880003590 Ligand Binding Site [chemical binding]; other site 977880003591 TilS substrate binding domain; Region: TilS; pfam09179 977880003592 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 977880003593 aspartate kinase; Reviewed; Region: PRK06635 977880003594 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 977880003595 putative nucleotide binding site [chemical binding]; other site 977880003596 putative catalytic residues [active] 977880003597 putative Mg ion binding site [ion binding]; other site 977880003598 putative aspartate binding site [chemical binding]; other site 977880003599 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 977880003600 putative allosteric regulatory site; other site 977880003601 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 977880003602 cyclase homology domain; Region: CHD; cd07302 977880003603 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 977880003604 nucleotidyl binding site; other site 977880003605 metal binding site [ion binding]; metal-binding site 977880003606 dimer interface [polypeptide binding]; other site 977880003607 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 977880003608 phosphopeptide binding site; other site 977880003609 pyruvate carboxylase; Reviewed; Region: PRK12999 977880003610 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 977880003611 ATP-grasp domain; Region: ATP-grasp_4; cl17255 977880003612 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 977880003613 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 977880003614 active site 977880003615 catalytic residues [active] 977880003616 metal binding site [ion binding]; metal-binding site 977880003617 homodimer binding site [polypeptide binding]; other site 977880003618 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 977880003619 carboxyltransferase (CT) interaction site; other site 977880003620 biotinylation site [posttranslational modification]; other site 977880003621 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 977880003622 Pirin-related protein [General function prediction only]; Region: COG1741 977880003623 Pirin; Region: Pirin; pfam02678 977880003624 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 977880003625 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 977880003626 DUF35 OB-fold domain; Region: DUF35; pfam01796 977880003627 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 977880003628 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 977880003629 active site 977880003630 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 977880003631 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880003632 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880003633 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 977880003634 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_2; cd08498 977880003635 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 977880003636 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 977880003637 dimer interface [polypeptide binding]; other site 977880003638 conserved gate region; other site 977880003639 putative PBP binding loops; other site 977880003640 ABC-ATPase subunit interface; other site 977880003641 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 977880003642 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 977880003643 dimer interface [polypeptide binding]; other site 977880003644 conserved gate region; other site 977880003645 putative PBP binding loops; other site 977880003646 ABC-ATPase subunit interface; other site 977880003647 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 977880003648 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880003649 Walker A/P-loop; other site 977880003650 ATP binding site [chemical binding]; other site 977880003651 Q-loop/lid; other site 977880003652 ABC transporter signature motif; other site 977880003653 Walker B; other site 977880003654 D-loop; other site 977880003655 H-loop/switch region; other site 977880003656 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 977880003657 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 977880003658 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880003659 Walker A/P-loop; other site 977880003660 ATP binding site [chemical binding]; other site 977880003661 Q-loop/lid; other site 977880003662 ABC transporter signature motif; other site 977880003663 Walker B; other site 977880003664 D-loop; other site 977880003665 H-loop/switch region; other site 977880003666 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 977880003667 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 977880003668 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880003669 trimer interface [polypeptide binding]; other site 977880003670 eyelet of channel; other site 977880003671 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 977880003672 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 977880003673 FAD binding domain; Region: FAD_binding_4; pfam01565 977880003674 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 977880003675 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 977880003676 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 977880003677 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 977880003678 Protein of unknown function (DUF962); Region: DUF962; cl01879 977880003679 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880003680 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 977880003681 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 977880003682 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 977880003683 homodimer interface [polypeptide binding]; other site 977880003684 substrate-cofactor binding pocket; other site 977880003685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880003686 catalytic residue [active] 977880003687 FOG: CBS domain [General function prediction only]; Region: COG0517 977880003688 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_12; cd04625 977880003689 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880003690 putative substrate translocation pore; other site 977880003691 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 977880003692 putative acyl-acceptor binding pocket; other site 977880003693 GST_N family, Metaxin subfamily, Metaxin-like proteins; a heterogenous group of proteins, predominantly uncharacterized, with similarity to metaxins and GSTs. Metaxin 1 is a component of a preprotein import complex of the mitochondrial outer membrane. It...; Region: GST_N_Metaxin_like; cd03080 977880003694 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 977880003695 putative C-terminal domain interface [polypeptide binding]; other site 977880003696 putative GSH binding site [chemical binding]; other site 977880003697 putative dimer interface [polypeptide binding]; other site 977880003698 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 977880003699 putative N-terminal domain interface [polypeptide binding]; other site 977880003700 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 977880003701 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 977880003702 Tetramer interface [polypeptide binding]; other site 977880003703 active site 977880003704 FMN-binding site [chemical binding]; other site 977880003705 MFS_1 like family; Region: MFS_1_like; pfam12832 977880003706 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 977880003707 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880003708 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 977880003709 trimer interface [polypeptide binding]; other site 977880003710 eyelet of channel; other site 977880003711 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 977880003712 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 977880003713 NAD(P) binding site [chemical binding]; other site 977880003714 catalytic residues [active] 977880003715 Transcriptional regulators [Transcription]; Region: GntR; COG1802 977880003716 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880003717 DNA-binding site [nucleotide binding]; DNA binding site 977880003718 FCD domain; Region: FCD; pfam07729 977880003719 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880003720 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 977880003721 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 977880003722 active site pocket [active] 977880003723 hypothetical protein; Validated; Region: PRK08245 977880003724 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 977880003725 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880003726 NAD(P) binding site [chemical binding]; other site 977880003727 active site 977880003728 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 977880003729 Strictosidine synthase; Region: Str_synth; pfam03088 977880003730 hydroxyglutarate oxidase; Provisional; Region: PRK11728 977880003731 Predicted dehydrogenase [General function prediction only]; Region: COG0579 977880003732 Transcriptional regulators [Transcription]; Region: FadR; COG2186 977880003733 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880003734 DNA-binding site [nucleotide binding]; DNA binding site 977880003735 Flagellar protein YcgR; Region: YcgR_2; pfam12945 977880003736 PilZ domain; Region: PilZ; pfam07238 977880003737 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 977880003738 Lipase (class 2); Region: Lipase_2; pfam01674 977880003739 PGAP1-like protein; Region: PGAP1; pfam07819 977880003740 lipase chaperone; Provisional; Region: PRK01294 977880003741 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 977880003742 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 977880003743 hydroxyglutarate oxidase; Provisional; Region: PRK11728 977880003744 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 977880003745 short chain dehydrogenase; Provisional; Region: PRK06949 977880003746 classical (c) SDRs; Region: SDR_c; cd05233 977880003747 NAD(P) binding site [chemical binding]; other site 977880003748 active site 977880003749 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 977880003750 DctM-like transporters; Region: DctM; pfam06808 977880003751 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 977880003752 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 977880003753 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 977880003754 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 977880003755 active site 977880003756 PAS domain; Region: PAS_9; pfam13426 977880003757 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 977880003758 putative active site [active] 977880003759 heme pocket [chemical binding]; other site 977880003760 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 977880003761 DNA binding residues [nucleotide binding] 977880003762 dimerization interface [polypeptide binding]; other site 977880003763 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 977880003764 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 977880003765 Uncharacterized conserved protein [Function unknown]; Region: COG4273 977880003766 Predicted metal-binding protein [General function prediction only]; Region: COG3019 977880003767 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 977880003768 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 977880003769 NAD binding site [chemical binding]; other site 977880003770 homotetramer interface [polypeptide binding]; other site 977880003771 homodimer interface [polypeptide binding]; other site 977880003772 substrate binding site [chemical binding]; other site 977880003773 active site 977880003774 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880003775 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 977880003776 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 977880003777 homotrimer interaction site [polypeptide binding]; other site 977880003778 putative active site [active] 977880003779 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 977880003780 HD domain; Region: HD_4; pfam13328 977880003781 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 977880003782 synthetase active site [active] 977880003783 NTP binding site [chemical binding]; other site 977880003784 metal binding site [ion binding]; metal-binding site 977880003785 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 977880003786 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 977880003787 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 977880003788 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 977880003789 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 977880003790 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 977880003791 active site 977880003792 dimer interface [polypeptide binding]; other site 977880003793 motif 1; other site 977880003794 motif 2; other site 977880003795 motif 3; other site 977880003796 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 977880003797 anticodon binding site; other site 977880003798 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 977880003799 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 977880003800 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 977880003801 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 977880003802 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 977880003803 23S rRNA binding site [nucleotide binding]; other site 977880003804 L21 binding site [polypeptide binding]; other site 977880003805 L13 binding site [polypeptide binding]; other site 977880003806 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 977880003807 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 977880003808 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 977880003809 dimer interface [polypeptide binding]; other site 977880003810 motif 1; other site 977880003811 active site 977880003812 motif 2; other site 977880003813 motif 3; other site 977880003814 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 977880003815 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 977880003816 putative tRNA-binding site [nucleotide binding]; other site 977880003817 B3/4 domain; Region: B3_4; pfam03483 977880003818 tRNA synthetase B5 domain; Region: B5; smart00874 977880003819 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 977880003820 dimer interface [polypeptide binding]; other site 977880003821 motif 1; other site 977880003822 motif 3; other site 977880003823 motif 2; other site 977880003824 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 977880003825 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 977880003826 IHF - DNA interface [nucleotide binding]; other site 977880003827 IHF dimer interface [polypeptide binding]; other site 977880003828 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 977880003829 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 977880003830 DNA binding residues [nucleotide binding] 977880003831 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 977880003832 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 977880003833 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 977880003834 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 977880003835 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 977880003836 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 977880003837 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880003838 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880003839 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880003840 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_5; cd08426 977880003841 putative dimerization interface [polypeptide binding]; other site 977880003842 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 977880003843 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 977880003844 active site 977880003845 putative substrate binding pocket [chemical binding]; other site 977880003846 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 977880003847 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 977880003848 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 977880003849 Sulfate transporter family; Region: Sulfate_transp; pfam00916 977880003850 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 977880003851 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 977880003852 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880003853 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 977880003854 putative catalytic site [active] 977880003855 putative phosphate binding site [ion binding]; other site 977880003856 active site 977880003857 metal binding site A [ion binding]; metal-binding site 977880003858 DNA binding site [nucleotide binding] 977880003859 putative AP binding site [nucleotide binding]; other site 977880003860 putative metal binding site B [ion binding]; other site 977880003861 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 977880003862 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 977880003863 active site 977880003864 Zn binding site [ion binding]; other site 977880003865 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 977880003866 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 977880003867 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 977880003868 homodimer interface [polypeptide binding]; other site 977880003869 NADP binding site [chemical binding]; other site 977880003870 substrate binding site [chemical binding]; other site 977880003871 Predicted membrane protein [Function unknown]; Region: COG3235 977880003872 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 977880003873 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 977880003874 active site 977880003875 phosphorylation site [posttranslational modification] 977880003876 intermolecular recognition site; other site 977880003877 dimerization interface [polypeptide binding]; other site 977880003878 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 977880003879 DNA binding residues [nucleotide binding] 977880003880 dimerization interface [polypeptide binding]; other site 977880003881 PAS domain S-box; Region: sensory_box; TIGR00229 977880003882 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 977880003883 putative active site [active] 977880003884 heme pocket [chemical binding]; other site 977880003885 PAS domain S-box; Region: sensory_box; TIGR00229 977880003886 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 977880003887 dimer interface [polypeptide binding]; other site 977880003888 phosphorylation site [posttranslational modification] 977880003889 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 977880003890 ATP binding site [chemical binding]; other site 977880003891 Mg2+ binding site [ion binding]; other site 977880003892 G-X-G motif; other site 977880003893 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 977880003894 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 977880003895 dimer interface [polypeptide binding]; other site 977880003896 TPP-binding site [chemical binding]; other site 977880003897 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 977880003898 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 977880003899 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 977880003900 E3 interaction surface; other site 977880003901 lipoyl attachment site [posttranslational modification]; other site 977880003902 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 977880003903 E3 interaction surface; other site 977880003904 lipoyl attachment site [posttranslational modification]; other site 977880003905 e3 binding domain; Region: E3_binding; pfam02817 977880003906 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 977880003907 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 977880003908 active site 977880003909 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 977880003910 E3 interaction surface; other site 977880003911 lipoyl attachment site [posttranslational modification]; other site 977880003912 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 977880003913 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880003914 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 977880003915 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 977880003916 Phasin protein; Region: Phasin_2; pfam09361 977880003917 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 977880003918 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 977880003919 putative active site [active] 977880003920 Zn binding site [ion binding]; other site 977880003921 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 977880003922 EamA-like transporter family; Region: EamA; pfam00892 977880003923 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 977880003924 active site 977880003925 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 977880003926 putative FMN binding site [chemical binding]; other site 977880003927 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 977880003928 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 977880003929 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 977880003930 FAD binding domain; Region: FAD_binding_4; pfam01565 977880003931 Transcriptional regulators [Transcription]; Region: FadR; COG2186 977880003932 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880003933 DNA-binding site [nucleotide binding]; DNA binding site 977880003934 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 977880003935 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880003936 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880003937 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 977880003938 Cysteine-rich domain; Region: CCG; pfam02754 977880003939 Cysteine-rich domain; Region: CCG; pfam02754 977880003940 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 977880003941 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 977880003942 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 977880003943 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 977880003944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4951 977880003945 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 977880003946 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 977880003947 ATP binding site [chemical binding]; other site 977880003948 putative Mg++ binding site [ion binding]; other site 977880003949 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 977880003950 nucleotide binding region [chemical binding]; other site 977880003951 ATP-binding site [chemical binding]; other site 977880003952 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 977880003953 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880003954 Walker A/P-loop; other site 977880003955 ATP binding site [chemical binding]; other site 977880003956 Q-loop/lid; other site 977880003957 ABC transporter signature motif; other site 977880003958 Walker B; other site 977880003959 D-loop; other site 977880003960 H-loop/switch region; other site 977880003961 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 977880003962 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 977880003963 TM-ABC transporter signature motif; other site 977880003964 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 977880003965 zinc binding site [ion binding]; other site 977880003966 putative ligand binding site [chemical binding]; other site 977880003967 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 977880003968 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 977880003969 quinone interaction residues [chemical binding]; other site 977880003970 active site 977880003971 catalytic residues [active] 977880003972 FMN binding site [chemical binding]; other site 977880003973 substrate binding site [chemical binding]; other site 977880003974 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 977880003975 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 977880003976 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 977880003977 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 977880003978 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 977880003979 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 977880003980 nudix motif; other site 977880003981 RES domain; Region: RES; smart00953 977880003982 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 977880003983 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 977880003984 4Fe-4S binding domain; Region: Fer4; pfam00037 977880003985 4Fe-4S binding domain; Region: Fer4; pfam00037 977880003986 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 977880003987 dimerization interface [polypeptide binding]; other site 977880003988 FAD binding pocket [chemical binding]; other site 977880003989 FAD binding motif [chemical binding]; other site 977880003990 catalytic residues [active] 977880003991 NAD binding pocket [chemical binding]; other site 977880003992 phosphate binding motif [ion binding]; other site 977880003993 beta-alpha-beta structure motif; other site 977880003994 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 977880003995 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 977880003996 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 977880003997 substrate binding site [chemical binding]; other site 977880003998 oxyanion hole (OAH) forming residues; other site 977880003999 trimer interface [polypeptide binding]; other site 977880004000 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 977880004001 non-specific DNA binding site [nucleotide binding]; other site 977880004002 salt bridge; other site 977880004003 sequence-specific DNA binding site [nucleotide binding]; other site 977880004004 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 977880004005 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 977880004006 ADP binding site [chemical binding]; other site 977880004007 magnesium binding site [ion binding]; other site 977880004008 putative shikimate binding site; other site 977880004009 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 977880004010 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 977880004011 dimer interface [polypeptide binding]; other site 977880004012 acyl-activating enzyme (AAE) consensus motif; other site 977880004013 putative active site [active] 977880004014 putative AMP binding site [chemical binding]; other site 977880004015 putative CoA binding site [chemical binding]; other site 977880004016 chemical substrate binding site [chemical binding]; other site 977880004017 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880004018 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 977880004019 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 977880004020 putative ligand binding site [chemical binding]; other site 977880004021 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 977880004022 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 977880004023 TM-ABC transporter signature motif; other site 977880004024 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 977880004025 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 977880004026 TM-ABC transporter signature motif; other site 977880004027 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 977880004028 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 977880004029 Walker A/P-loop; other site 977880004030 ATP binding site [chemical binding]; other site 977880004031 Q-loop/lid; other site 977880004032 ABC transporter signature motif; other site 977880004033 Walker B; other site 977880004034 D-loop; other site 977880004035 H-loop/switch region; other site 977880004036 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 977880004037 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 977880004038 Walker A/P-loop; other site 977880004039 ATP binding site [chemical binding]; other site 977880004040 Q-loop/lid; other site 977880004041 ABC transporter signature motif; other site 977880004042 Walker B; other site 977880004043 D-loop; other site 977880004044 H-loop/switch region; other site 977880004045 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 977880004046 potassium uptake protein; Region: kup; TIGR00794 977880004047 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 977880004048 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880004049 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 977880004050 DNA binding residues [nucleotide binding] 977880004051 dimerization interface [polypeptide binding]; other site 977880004052 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 977880004053 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 977880004054 putative dimer interface [polypeptide binding]; other site 977880004055 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 977880004056 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 977880004057 putative dimer interface [polypeptide binding]; other site 977880004058 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 977880004059 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 977880004060 NAD binding site [chemical binding]; other site 977880004061 substrate binding site [chemical binding]; other site 977880004062 active site 977880004063 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 977880004064 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 977880004065 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 977880004066 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 977880004067 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 977880004068 active site 977880004069 phosphorylation site [posttranslational modification] 977880004070 intermolecular recognition site; other site 977880004071 dimerization interface [polypeptide binding]; other site 977880004072 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 977880004073 DNA binding site [nucleotide binding] 977880004074 sensor protein QseC; Provisional; Region: PRK10337 977880004075 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 977880004076 dimer interface [polypeptide binding]; other site 977880004077 phosphorylation site [posttranslational modification] 977880004078 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 977880004079 ATP binding site [chemical binding]; other site 977880004080 G-X-G motif; other site 977880004081 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 977880004082 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 977880004083 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 977880004084 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 977880004085 RNA binding site [nucleotide binding]; other site 977880004086 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 977880004087 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 977880004088 DEAD_2; Region: DEAD_2; pfam06733 977880004089 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 977880004090 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 977880004091 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 977880004092 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 977880004093 RNA binding surface [nucleotide binding]; other site 977880004094 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 977880004095 active site 977880004096 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 977880004097 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 977880004098 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 977880004099 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 977880004100 putative acyltransferase; Provisional; Region: PRK05790 977880004101 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 977880004102 dimer interface [polypeptide binding]; other site 977880004103 active site 977880004104 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 977880004105 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 977880004106 NAD(P) binding site [chemical binding]; other site 977880004107 homotetramer interface [polypeptide binding]; other site 977880004108 homodimer interface [polypeptide binding]; other site 977880004109 active site 977880004110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 977880004111 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 977880004112 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 977880004113 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 977880004114 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 977880004115 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 977880004116 FMN binding site [chemical binding]; other site 977880004117 active site 977880004118 catalytic residues [active] 977880004119 substrate binding site [chemical binding]; other site 977880004120 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 977880004121 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 977880004122 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 977880004123 FeS/SAM binding site; other site 977880004124 TRAM domain; Region: TRAM; cl01282 977880004125 beta-ketothiolase; Provisional; Region: PRK09051 977880004126 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 977880004127 dimer interface [polypeptide binding]; other site 977880004128 active site 977880004129 cystathionine beta-lyase; Provisional; Region: PRK07050 977880004130 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 977880004131 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 977880004132 catalytic residue [active] 977880004133 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 977880004134 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 977880004135 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 977880004136 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 977880004137 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 977880004138 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 977880004139 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 977880004140 motif II; other site 977880004141 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 977880004142 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 977880004143 metal binding site [ion binding]; metal-binding site 977880004144 putative dimer interface [polypeptide binding]; other site 977880004145 acetylornithine deacetylase; Provisional; Region: PRK07522 977880004146 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 977880004147 metal binding site [ion binding]; metal-binding site 977880004148 putative dimer interface [polypeptide binding]; other site 977880004149 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 977880004150 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 977880004151 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 977880004152 ATP binding site [chemical binding]; other site 977880004153 putative Mg++ binding site [ion binding]; other site 977880004154 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 977880004155 nucleotide binding region [chemical binding]; other site 977880004156 ATP-binding site [chemical binding]; other site 977880004157 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 977880004158 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 977880004159 substrate binding site; other site 977880004160 dimer interface; other site 977880004161 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 977880004162 homotrimer interaction site [polypeptide binding]; other site 977880004163 zinc binding site [ion binding]; other site 977880004164 CDP-binding sites; other site 977880004165 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880004166 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 977880004167 Coenzyme A binding pocket [chemical binding]; other site 977880004168 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 977880004169 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 977880004170 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 977880004171 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 977880004172 dimer interface [polypeptide binding]; other site 977880004173 decamer (pentamer of dimers) interface [polypeptide binding]; other site 977880004174 catalytic triad [active] 977880004175 peroxidatic and resolving cysteines [active] 977880004176 citrate-proton symporter; Provisional; Region: PRK15075 977880004177 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880004178 putative substrate translocation pore; other site 977880004179 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 977880004180 dimerization interface [polypeptide binding]; other site 977880004181 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 977880004182 ATP binding site [chemical binding]; other site 977880004183 Mg2+ binding site [ion binding]; other site 977880004184 G-X-G motif; other site 977880004185 osmolarity response regulator; Provisional; Region: ompR; PRK09468 977880004186 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 977880004187 active site 977880004188 phosphorylation site [posttranslational modification] 977880004189 intermolecular recognition site; other site 977880004190 dimerization interface [polypeptide binding]; other site 977880004191 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 977880004192 DNA binding site [nucleotide binding] 977880004193 allantoate amidohydrolase; Reviewed; Region: PRK12893 977880004194 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 977880004195 active site 977880004196 metal binding site [ion binding]; metal-binding site 977880004197 dimer interface [polypeptide binding]; other site 977880004198 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 977880004199 active site lid residues [active] 977880004200 substrate binding pocket [chemical binding]; other site 977880004201 catalytic residues [active] 977880004202 substrate-Mg2+ binding site; other site 977880004203 aspartate-rich region 1; other site 977880004204 aspartate-rich region 2; other site 977880004205 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 977880004206 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880004207 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880004208 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 977880004209 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 977880004210 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 977880004211 Uncharacterized conserved protein [Function unknown]; Region: COG4121 977880004212 trigger factor; Provisional; Region: tig; PRK01490 977880004213 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 977880004214 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 977880004215 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 977880004216 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 977880004217 oligomer interface [polypeptide binding]; other site 977880004218 active site residues [active] 977880004219 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 977880004220 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 977880004221 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 977880004222 Walker A motif; other site 977880004223 ATP binding site [chemical binding]; other site 977880004224 Walker B motif; other site 977880004225 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 977880004226 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 977880004227 Found in ATP-dependent protease La (LON); Region: LON; smart00464 977880004228 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 977880004229 Walker A motif; other site 977880004230 ATP binding site [chemical binding]; other site 977880004231 Walker B motif; other site 977880004232 arginine finger; other site 977880004233 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 977880004234 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 977880004235 phosphate acetyltransferase; Provisional; Region: PRK11890 977880004236 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 977880004237 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 977880004238 propionate/acetate kinase; Provisional; Region: PRK12379 977880004239 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 977880004240 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 977880004241 NAD binding site [chemical binding]; other site 977880004242 homotetramer interface [polypeptide binding]; other site 977880004243 homodimer interface [polypeptide binding]; other site 977880004244 substrate binding site [chemical binding]; other site 977880004245 active site 977880004246 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 977880004247 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 977880004248 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880004249 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880004250 amino acid transporter; Region: 2A0306; TIGR00909 977880004251 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 977880004252 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 977880004253 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 977880004254 homodimer interface [polypeptide binding]; other site 977880004255 substrate-cofactor binding pocket; other site 977880004256 catalytic residue [active] 977880004257 Patatin-like phospholipase; Region: Patatin; pfam01734 977880004258 nucleophile elbow; other site 977880004259 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 977880004260 Uncharacterized conserved protein [Function unknown]; Region: COG2128 977880004261 Cupin domain; Region: Cupin_2; pfam07883 977880004262 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 977880004263 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 977880004264 homotrimer interaction site [polypeptide binding]; other site 977880004265 putative active site [active] 977880004266 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880004267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880004268 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 977880004269 putative effector binding pocket; other site 977880004270 dimerization interface [polypeptide binding]; other site 977880004271 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 977880004272 classical (c) SDRs; Region: SDR_c; cd05233 977880004273 NAD(P) binding site [chemical binding]; other site 977880004274 active site 977880004275 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 977880004276 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 977880004277 conserved cys residue [active] 977880004278 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880004279 polyphosphate kinase; Provisional; Region: PRK05443 977880004280 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 977880004281 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 977880004282 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 977880004283 putative domain interface [polypeptide binding]; other site 977880004284 putative active site [active] 977880004285 catalytic site [active] 977880004286 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 977880004287 putative active site [active] 977880004288 catalytic site [active] 977880004289 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 977880004290 FAD binding domain; Region: FAD_binding_4; pfam01565 977880004291 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 977880004292 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880004293 DNA-binding site [nucleotide binding]; DNA binding site 977880004294 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 977880004295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880004296 homodimer interface [polypeptide binding]; other site 977880004297 catalytic residue [active] 977880004298 acetylornithine deacetylase; Provisional; Region: PRK06837 977880004299 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 977880004300 metal binding site [ion binding]; metal-binding site 977880004301 dimer interface [polypeptide binding]; other site 977880004302 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 977880004303 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_13; cd08517 977880004304 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 977880004305 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 977880004306 dimer interface [polypeptide binding]; other site 977880004307 conserved gate region; other site 977880004308 putative PBP binding loops; other site 977880004309 ABC-ATPase subunit interface; other site 977880004310 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 977880004311 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 977880004312 dimer interface [polypeptide binding]; other site 977880004313 conserved gate region; other site 977880004314 putative PBP binding loops; other site 977880004315 ABC-ATPase subunit interface; other site 977880004316 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 977880004317 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880004318 Walker A/P-loop; other site 977880004319 ATP binding site [chemical binding]; other site 977880004320 Q-loop/lid; other site 977880004321 ABC transporter signature motif; other site 977880004322 Walker B; other site 977880004323 D-loop; other site 977880004324 H-loop/switch region; other site 977880004325 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 977880004326 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880004327 Walker A/P-loop; other site 977880004328 ATP binding site [chemical binding]; other site 977880004329 Q-loop/lid; other site 977880004330 ABC transporter signature motif; other site 977880004331 Walker B; other site 977880004332 D-loop; other site 977880004333 H-loop/switch region; other site 977880004334 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 977880004335 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 977880004336 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 977880004337 inhibitor-cofactor binding pocket; inhibition site 977880004338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880004339 catalytic residue [active] 977880004340 succinic semialdehyde dehydrogenase; Region: PLN02278 977880004341 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 977880004342 tetramerization interface [polypeptide binding]; other site 977880004343 NAD(P) binding site [chemical binding]; other site 977880004344 catalytic residues [active] 977880004345 Cupin domain; Region: Cupin_2; cl17218 977880004346 thiamine pyrophosphate protein; Validated; Region: PRK08199 977880004347 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 977880004348 PYR/PP interface [polypeptide binding]; other site 977880004349 dimer interface [polypeptide binding]; other site 977880004350 TPP binding site [chemical binding]; other site 977880004351 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 977880004352 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 977880004353 TPP-binding site [chemical binding]; other site 977880004354 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 977880004355 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 977880004356 active site 977880004357 Zn binding site [ion binding]; other site 977880004358 allantoate amidohydrolase; Reviewed; Region: PRK12893 977880004359 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 977880004360 active site 977880004361 metal binding site [ion binding]; metal-binding site 977880004362 dimer interface [polypeptide binding]; other site 977880004363 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 977880004364 EamA-like transporter family; Region: EamA; pfam00892 977880004365 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 977880004366 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 977880004367 NAD(P) binding site [chemical binding]; other site 977880004368 catalytic residues [active] 977880004369 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 977880004370 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 977880004371 active site 977880004372 metal binding site [ion binding]; metal-binding site 977880004373 hexamer interface [polypeptide binding]; other site 977880004374 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 977880004375 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880004376 Walker A/P-loop; other site 977880004377 ATP binding site [chemical binding]; other site 977880004378 Q-loop/lid; other site 977880004379 ABC transporter signature motif; other site 977880004380 Walker B; other site 977880004381 D-loop; other site 977880004382 H-loop/switch region; other site 977880004383 TOBE domain; Region: TOBE_2; pfam08402 977880004384 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 977880004385 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 977880004386 dimer interface [polypeptide binding]; other site 977880004387 conserved gate region; other site 977880004388 putative PBP binding loops; other site 977880004389 ABC-ATPase subunit interface; other site 977880004390 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 977880004391 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 977880004392 dimer interface [polypeptide binding]; other site 977880004393 conserved gate region; other site 977880004394 putative PBP binding loops; other site 977880004395 ABC-ATPase subunit interface; other site 977880004396 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 977880004397 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 977880004398 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 977880004399 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 977880004400 DNA binding site [nucleotide binding] 977880004401 domain linker motif; other site 977880004402 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 977880004403 putative dimerization interface [polypeptide binding]; other site 977880004404 putative ligand binding site [chemical binding]; other site 977880004405 SurA N-terminal domain; Region: SurA_N_3; cl07813 977880004406 periplasmic folding chaperone; Provisional; Region: PRK10788 977880004407 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 977880004408 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 977880004409 active site 977880004410 catalytic triad [active] 977880004411 oxyanion hole [active] 977880004412 switch loop; other site 977880004413 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 977880004414 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 977880004415 Walker A/P-loop; other site 977880004416 ATP binding site [chemical binding]; other site 977880004417 Q-loop/lid; other site 977880004418 ABC transporter signature motif; other site 977880004419 Walker B; other site 977880004420 D-loop; other site 977880004421 H-loop/switch region; other site 977880004422 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 977880004423 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 977880004424 active site 977880004425 dimer interface [polypeptide binding]; other site 977880004426 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 977880004427 dimer interface [polypeptide binding]; other site 977880004428 active site 977880004429 Uncharacterized conserved protein [Function unknown]; Region: COG0062 977880004430 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 977880004431 putative substrate binding site [chemical binding]; other site 977880004432 putative ATP binding site [chemical binding]; other site 977880004433 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 977880004434 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 977880004435 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 977880004436 DctM-like transporters; Region: DctM; pfam06808 977880004437 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 977880004438 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 977880004439 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 977880004440 amidase; Provisional; Region: PRK07056 977880004441 Amidase; Region: Amidase; cl11426 977880004442 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880004443 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 977880004444 dimer interface [polypeptide binding]; other site 977880004445 phosphorylation site [posttranslational modification] 977880004446 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 977880004447 ATP binding site [chemical binding]; other site 977880004448 Mg2+ binding site [ion binding]; other site 977880004449 G-X-G motif; other site 977880004450 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 977880004451 MarR family; Region: MarR_2; cl17246 977880004452 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 977880004453 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 977880004454 dimerization interface [polypeptide binding]; other site 977880004455 ATP binding site [chemical binding]; other site 977880004456 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 977880004457 dimerization interface [polypeptide binding]; other site 977880004458 ATP binding site [chemical binding]; other site 977880004459 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 977880004460 putative active site [active] 977880004461 catalytic triad [active] 977880004462 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 977880004463 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 977880004464 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 977880004465 intracellular septation protein A; Reviewed; Region: PRK00259 977880004466 methionine sulfoxide reductase B; Provisional; Region: PRK00222 977880004467 SelR domain; Region: SelR; pfam01641 977880004468 Uncharacterized conserved protein [Function unknown]; Region: COG0397 977880004469 hypothetical protein; Validated; Region: PRK00029 977880004470 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 977880004471 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 977880004472 dimer interface [polypeptide binding]; other site 977880004473 acyl-activating enzyme (AAE) consensus motif; other site 977880004474 putative active site [active] 977880004475 AMP binding site [chemical binding]; other site 977880004476 putative CoA binding site [chemical binding]; other site 977880004477 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 977880004478 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 977880004479 putative ligand binding site [chemical binding]; other site 977880004480 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 977880004481 TM-ABC transporter signature motif; other site 977880004482 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 977880004483 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 977880004484 TM-ABC transporter signature motif; other site 977880004485 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 977880004486 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 977880004487 Walker A/P-loop; other site 977880004488 ATP binding site [chemical binding]; other site 977880004489 Q-loop/lid; other site 977880004490 ABC transporter signature motif; other site 977880004491 Walker B; other site 977880004492 D-loop; other site 977880004493 H-loop/switch region; other site 977880004494 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 977880004495 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 977880004496 Walker A/P-loop; other site 977880004497 ATP binding site [chemical binding]; other site 977880004498 Q-loop/lid; other site 977880004499 ABC transporter signature motif; other site 977880004500 Walker B; other site 977880004501 D-loop; other site 977880004502 H-loop/switch region; other site 977880004503 lysine transporter; Provisional; Region: PRK10836 977880004504 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 977880004505 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 977880004506 substrate binding site [chemical binding]; other site 977880004507 oxyanion hole (OAH) forming residues; other site 977880004508 trimer interface [polypeptide binding]; other site 977880004509 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 977880004510 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 977880004511 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 977880004512 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 977880004513 Isochorismatase family; Region: Isochorismatase; pfam00857 977880004514 catalytic triad [active] 977880004515 metal binding site [ion binding]; metal-binding site 977880004516 conserved cis-peptide bond; other site 977880004517 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 977880004518 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 977880004519 dimer interface [polypeptide binding]; other site 977880004520 active site 977880004521 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 977880004522 CoenzymeA binding site [chemical binding]; other site 977880004523 subunit interaction site [polypeptide binding]; other site 977880004524 PHB binding site; other site 977880004525 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 977880004526 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 977880004527 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 977880004528 FAD binding site [chemical binding]; other site 977880004529 substrate binding site [chemical binding]; other site 977880004530 catalytic residues [active] 977880004531 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 977880004532 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 977880004533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880004534 NAD(P) binding site [chemical binding]; other site 977880004535 active site 977880004536 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 977880004537 CoenzymeA binding site [chemical binding]; other site 977880004538 subunit interaction site [polypeptide binding]; other site 977880004539 PHB binding site; other site 977880004540 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 977880004541 Prostaglandin dehydrogenases; Region: PGDH; cd05288 977880004542 NAD(P) binding site [chemical binding]; other site 977880004543 substrate binding site [chemical binding]; other site 977880004544 dimer interface [polypeptide binding]; other site 977880004545 hypothetical protein; Provisional; Region: PRK06208 977880004546 intersubunit interface [polypeptide binding]; other site 977880004547 active site 977880004548 Zn2+ binding site [ion binding]; other site 977880004549 hypothetical protein; Provisional; Region: PRK06194 977880004550 classical (c) SDRs; Region: SDR_c; cd05233 977880004551 NAD(P) binding site [chemical binding]; other site 977880004552 active site 977880004553 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880004554 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 977880004555 putative ADP-ribose binding site [chemical binding]; other site 977880004556 putative active site [active] 977880004557 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 977880004558 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 977880004559 putative active site [active] 977880004560 metal binding site [ion binding]; metal-binding site 977880004561 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 977880004562 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 977880004563 substrate binding pocket [chemical binding]; other site 977880004564 Tripartite tricarboxylate transporter family receptor; Region: TctC; pfam03401 977880004565 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 977880004566 active site 977880004567 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 977880004568 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 977880004569 putative NAD(P) binding site [chemical binding]; other site 977880004570 active site 977880004571 putative substrate binding site [chemical binding]; other site 977880004572 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 977880004573 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 977880004574 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880004575 putative substrate translocation pore; other site 977880004576 putative aldolase; Validated; Region: PRK08130 977880004577 intersubunit interface [polypeptide binding]; other site 977880004578 active site 977880004579 Zn2+ binding site [ion binding]; other site 977880004580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 977880004581 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 977880004582 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 977880004583 Transcriptional regulators [Transcription]; Region: FadR; COG2186 977880004584 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880004585 DNA-binding site [nucleotide binding]; DNA binding site 977880004586 FCD domain; Region: FCD; pfam07729 977880004587 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880004588 Coenzyme A binding pocket [chemical binding]; other site 977880004589 Uncharacterized conserved protein [Function unknown]; Region: COG3332 977880004590 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 977880004591 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 977880004592 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 977880004593 YceG-like family; Region: YceG; pfam02618 977880004594 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 977880004595 dimerization interface [polypeptide binding]; other site 977880004596 thymidylate kinase; Validated; Region: tmk; PRK00698 977880004597 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 977880004598 TMP-binding site; other site 977880004599 ATP-binding site [chemical binding]; other site 977880004600 DNA polymerase III subunit delta'; Validated; Region: PRK06964 977880004601 DNA polymerase III subunit delta'; Validated; Region: PRK08485 977880004602 PilZ domain; Region: PilZ; cl01260 977880004603 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 977880004604 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880004605 Coenzyme A binding pocket [chemical binding]; other site 977880004606 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 977880004607 active site 977880004608 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 977880004609 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 977880004610 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 977880004611 Uncharacterized conserved protein [Function unknown]; Region: COG3339 977880004612 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 977880004613 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 977880004614 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 977880004615 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 977880004616 LysR family transcriptional regulator; Provisional; Region: PRK14997 977880004617 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880004618 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 977880004619 putative effector binding pocket; other site 977880004620 putative dimerization interface [polypeptide binding]; other site 977880004621 DoxX; Region: DoxX; pfam07681 977880004622 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 977880004623 Response regulator receiver domain; Region: Response_reg; pfam00072 977880004624 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 977880004625 active site 977880004626 phosphorylation site [posttranslational modification] 977880004627 intermolecular recognition site; other site 977880004628 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 977880004629 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 977880004630 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 977880004631 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 977880004632 Cupin domain; Region: Cupin_2; cl17218 977880004633 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 977880004634 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 977880004635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 977880004636 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 977880004637 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 977880004638 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880004639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880004640 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 977880004641 dimerization interface [polypeptide binding]; other site 977880004642 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 977880004643 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 977880004644 dimer interface [polypeptide binding]; other site 977880004645 conserved gate region; other site 977880004646 putative PBP binding loops; other site 977880004647 ABC-ATPase subunit interface; other site 977880004648 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 977880004649 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880004650 DNA-binding site [nucleotide binding]; DNA binding site 977880004651 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 977880004652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880004653 homodimer interface [polypeptide binding]; other site 977880004654 catalytic residue [active] 977880004655 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 977880004656 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 977880004657 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 977880004658 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 977880004659 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 977880004660 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 977880004661 putative acyl-acceptor binding pocket; other site 977880004662 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 977880004663 Surface antigen; Region: Bac_surface_Ag; pfam01103 977880004664 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 977880004665 Uncharacterized conserved protein [Function unknown]; Region: COG1262 977880004666 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 977880004667 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 977880004668 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 977880004669 motif II; other site 977880004670 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 977880004671 Sulfatase; Region: Sulfatase; pfam00884 977880004672 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 977880004673 MoxR-like ATPases [General function prediction only]; Region: COG0714 977880004674 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 977880004675 Walker A motif; other site 977880004676 ATP binding site [chemical binding]; other site 977880004677 Walker B motif; other site 977880004678 arginine finger; other site 977880004679 Protein of unknown function DUF58; Region: DUF58; pfam01882 977880004680 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 977880004681 VWA BatA type: 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...; Region: vWA_BatA_type; cd01467 977880004682 metal ion-dependent adhesion site (MIDAS); other site 977880004683 von Willebrand factor type A domain; Region: VWA_2; pfam13519 977880004684 Oxygen tolerance; Region: BatD; pfam13584 977880004685 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 977880004686 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 977880004687 TrkA-C domain; Region: TrkA_C; pfam02080 977880004688 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 977880004689 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 977880004690 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 977880004691 putative active site [active] 977880004692 putative dimer interface [polypeptide binding]; other site 977880004693 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 977880004694 S-adenosylmethionine binding site [chemical binding]; other site 977880004695 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 977880004696 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 977880004697 S-adenosylmethionine binding site [chemical binding]; other site 977880004698 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 977880004699 nucleotide binding site [chemical binding]; other site 977880004700 putative NEF/HSP70 interaction site [polypeptide binding]; other site 977880004701 SBD interface [polypeptide binding]; other site 977880004702 DNA-K related protein; Region: DUF3731; pfam12531 977880004703 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 977880004704 nucleotide binding site [chemical binding]; other site 977880004705 putative NEF/HSP70 interaction site [polypeptide binding]; other site 977880004706 SBD interface [polypeptide binding]; other site 977880004707 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 977880004708 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 977880004709 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 977880004710 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 977880004711 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 977880004712 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 977880004713 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 977880004714 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 977880004715 DNA binding residues [nucleotide binding] 977880004716 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 977880004717 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 977880004718 putative DNA binding site [nucleotide binding]; other site 977880004719 putative Zn2+ binding site [ion binding]; other site 977880004720 AsnC family; Region: AsnC_trans_reg; pfam01037 977880004721 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 977880004722 TolA protein; Region: tolA_full; TIGR02794 977880004723 TonB C terminal; Region: TonB_2; pfam13103 977880004724 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 977880004725 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880004726 active site 977880004727 metal binding site [ion binding]; metal-binding site 977880004728 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880004729 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880004730 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 977880004731 AMP-binding domain protein; Validated; Region: PRK08315 977880004732 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880004733 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 977880004734 acyl-activating enzyme (AAE) consensus motif; other site 977880004735 putative AMP binding site [chemical binding]; other site 977880004736 putative active site [active] 977880004737 putative CoA binding site [chemical binding]; other site 977880004738 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 977880004739 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 977880004740 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 977880004741 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 977880004742 ATP-grasp domain; Region: ATP-grasp_4; cl17255 977880004743 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 977880004744 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 977880004745 carboxyltransferase (CT) interaction site; other site 977880004746 biotinylation site [posttranslational modification]; other site 977880004747 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 977880004748 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 977880004749 putative C-terminal domain interface [polypeptide binding]; other site 977880004750 putative GSH binding site (G-site) [chemical binding]; other site 977880004751 putative dimer interface [polypeptide binding]; other site 977880004752 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 977880004753 dimer interface [polypeptide binding]; other site 977880004754 N-terminal domain interface [polypeptide binding]; other site 977880004755 putative substrate binding pocket (H-site) [chemical binding]; other site 977880004756 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 977880004757 dimer interface [polypeptide binding]; other site 977880004758 DNA polymerase II; Reviewed; Region: PRK05762 977880004759 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 977880004760 active site 977880004761 catalytic site [active] 977880004762 substrate binding site [chemical binding]; other site 977880004763 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 977880004764 active site 977880004765 metal-binding site 977880004766 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 977880004767 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 977880004768 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 977880004769 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 977880004770 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 977880004771 Predicted permease [General function prediction only]; Region: COG2985 977880004772 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 977880004773 TrkA-C domain; Region: TrkA_C; pfam02080 977880004774 TrkA-C domain; Region: TrkA_C; pfam02080 977880004775 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 977880004776 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 977880004777 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 977880004778 putative ligand binding site [chemical binding]; other site 977880004779 putative NAD binding site [chemical binding]; other site 977880004780 catalytic site [active] 977880004781 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 977880004782 membrane-bound complex binding site; other site 977880004783 hinge residues; other site 977880004784 mannonate dehydratase; Provisional; Region: PRK03906 977880004785 mannonate dehydratase; Region: uxuA; TIGR00695 977880004786 Transcriptional regulators [Transcription]; Region: FadR; COG2186 977880004787 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880004788 DNA-binding site [nucleotide binding]; DNA binding site 977880004789 FCD domain; Region: FCD; pfam07729 977880004790 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880004791 Coenzyme A binding pocket [chemical binding]; other site 977880004792 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 977880004793 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 977880004794 Methyltransferase domain; Region: Methyltransf_23; pfam13489 977880004795 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 977880004796 S-adenosylmethionine binding site [chemical binding]; other site 977880004797 Protein of unknown function DUF72; Region: DUF72; pfam01904 977880004798 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 977880004799 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 977880004800 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 977880004801 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 977880004802 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 977880004803 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 977880004804 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 977880004805 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 977880004806 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 977880004807 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 977880004808 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 977880004809 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 977880004810 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 977880004811 Trp docking motif [polypeptide binding]; other site 977880004812 cytochrome domain interface [polypeptide binding]; other site 977880004813 active site 977880004814 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 977880004815 enoyl-CoA hydratase; Provisional; Region: PRK09245 977880004816 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 977880004817 substrate binding site [chemical binding]; other site 977880004818 oxyanion hole (OAH) forming residues; other site 977880004819 trimer interface [polypeptide binding]; other site 977880004820 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 977880004821 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880004822 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 977880004823 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 977880004824 dimer interface [polypeptide binding]; other site 977880004825 active site 977880004826 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 977880004827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880004828 NAD(P) binding site [chemical binding]; other site 977880004829 active site 977880004830 enoyl-CoA hydratase; Provisional; Region: PRK08252 977880004831 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 977880004832 substrate binding site [chemical binding]; other site 977880004833 oxyanion hole (OAH) forming residues; other site 977880004834 trimer interface [polypeptide binding]; other site 977880004835 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880004836 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 977880004837 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 977880004838 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 977880004839 haemagglutination activity domain; Region: Haemagg_act; pfam05860 977880004840 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 977880004841 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 977880004842 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 977880004843 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 977880004844 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880004845 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880004846 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 977880004847 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 977880004848 ATP-grasp domain; Region: ATP-grasp; pfam02222 977880004849 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 977880004850 Mechanosensitive ion channel; Region: MS_channel; pfam00924 977880004851 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 977880004852 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880004853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880004854 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 977880004855 dimerization interface [polypeptide binding]; other site 977880004856 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 977880004857 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 977880004858 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 977880004859 Zn2+ binding site [ion binding]; other site 977880004860 Mg2+ binding site [ion binding]; other site 977880004861 Uncharacterized conserved protein [Function unknown]; Region: COG1359 977880004862 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 977880004863 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 977880004864 dimer interface [polypeptide binding]; other site 977880004865 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880004866 catalytic residue [active] 977880004867 Propionate catabolism activator; Region: PrpR_N; pfam06506 977880004868 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 977880004869 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 977880004870 putative active site [active] 977880004871 heme pocket [chemical binding]; other site 977880004872 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 977880004873 Walker A motif; other site 977880004874 ATP binding site [chemical binding]; other site 977880004875 Walker B motif; other site 977880004876 arginine finger; other site 977880004877 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880004878 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 977880004879 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 977880004880 tetramer interface [polypeptide binding]; other site 977880004881 active site 977880004882 Mg2+/Mn2+ binding site [ion binding]; other site 977880004883 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 977880004884 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 977880004885 dimer interface [polypeptide binding]; other site 977880004886 active site 977880004887 citrylCoA binding site [chemical binding]; other site 977880004888 oxalacetate/citrate binding site [chemical binding]; other site 977880004889 coenzyme A binding site [chemical binding]; other site 977880004890 catalytic triad [active] 977880004891 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 977880004892 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 977880004893 substrate binding site [chemical binding]; other site 977880004894 ligand binding site [chemical binding]; other site 977880004895 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 977880004896 substrate binding site [chemical binding]; other site 977880004897 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 977880004898 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 977880004899 active site 977880004900 homodimer interface [polypeptide binding]; other site 977880004901 homotetramer interface [polypeptide binding]; other site 977880004902 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 977880004903 CoenzymeA binding site [chemical binding]; other site 977880004904 subunit interaction site [polypeptide binding]; other site 977880004905 PHB binding site; other site 977880004906 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 977880004907 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 977880004908 MOSC domain; Region: MOSC; pfam03473 977880004909 3-alpha domain; Region: 3-alpha; pfam03475 977880004910 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 977880004911 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 977880004912 catalytic triad [active] 977880004913 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 977880004914 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 977880004915 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 977880004916 active site 977880004917 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 977880004918 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 977880004919 NAD binding site [chemical binding]; other site 977880004920 catalytic residues [active] 977880004921 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 977880004922 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 977880004923 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 977880004924 ABC transporter; Region: ABC_tran_2; pfam12848 977880004925 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 977880004926 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 977880004927 dimer interface [polypeptide binding]; other site 977880004928 catalytic triad [active] 977880004929 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 977880004930 nucleoside/Zn binding site; other site 977880004931 dimer interface [polypeptide binding]; other site 977880004932 catalytic motif [active] 977880004933 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 977880004934 active site 977880004935 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 977880004936 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 977880004937 FeS/SAM binding site; other site 977880004938 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 977880004939 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 977880004940 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 977880004941 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 977880004942 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 977880004943 iron-sulfur cluster [ion binding]; other site 977880004944 [2Fe-2S] cluster binding site [ion binding]; other site 977880004945 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 977880004946 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 977880004947 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 977880004948 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 977880004949 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 977880004950 non-specific DNA binding site [nucleotide binding]; other site 977880004951 Helix-turn-helix; Region: HTH_3; pfam01381 977880004952 salt bridge; other site 977880004953 sequence-specific DNA binding site [nucleotide binding]; other site 977880004954 HipA N-terminal domain; Region: Couple_hipA; pfam13657 977880004955 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 977880004956 HipA-like N-terminal domain; Region: HipA_N; pfam07805 977880004957 HipA-like C-terminal domain; Region: HipA_C; pfam07804 977880004958 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880004959 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 977880004960 Bacterial sugar transferase; Region: Bac_transf; pfam02397 977880004961 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 977880004962 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880004963 coproporphyrinogen III oxidase; Validated; Region: PRK05628 977880004964 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 977880004965 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 977880004966 Chain length determinant protein; Region: Wzz; pfam02706 977880004967 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 977880004968 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 977880004969 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 977880004970 P loop; other site 977880004971 Nucleotide binding site [chemical binding]; other site 977880004972 DTAP/Switch II; other site 977880004973 Switch I; other site 977880004974 Low molecular weight phosphatase family; Region: LMWPc; cd00115 977880004975 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 977880004976 active site 977880004977 polysaccharide export protein Wza; Provisional; Region: PRK15078 977880004978 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 977880004979 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 977880004980 active site 977880004981 tetramer interface; other site 977880004982 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 977880004983 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 977880004984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880004985 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 977880004986 dimerization interface [polypeptide binding]; other site 977880004987 substrate binding pocket [chemical binding]; other site 977880004988 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 977880004989 active site 1 [active] 977880004990 active site 2 [active] 977880004991 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 977880004992 Amidohydrolase; Region: Amidohydro_2; pfam04909 977880004993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880004994 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880004995 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880004996 enoyl-CoA hydratase; Provisional; Region: PRK06127 977880004997 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 977880004998 substrate binding site [chemical binding]; other site 977880004999 oxyanion hole (OAH) forming residues; other site 977880005000 trimer interface [polypeptide binding]; other site 977880005001 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 977880005002 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 977880005003 putative active site [active] 977880005004 metal binding site [ion binding]; metal-binding site 977880005005 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880005006 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 977880005007 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 977880005008 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 977880005009 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 977880005010 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 977880005011 Amidohydrolase; Region: Amidohydro_2; pfam04909 977880005012 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 977880005013 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : transporter 977880005014 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type r : regulator 977880005015 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 977880005016 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 977880005017 phosphate binding site [ion binding]; other site 977880005018 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 977880005019 trimer interface [polypeptide binding]; other site 977880005020 putative Zn binding site [ion binding]; other site 977880005021 GMP synthase; Reviewed; Region: guaA; PRK00074 977880005022 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 977880005023 AMP/PPi binding site [chemical binding]; other site 977880005024 candidate oxyanion hole; other site 977880005025 catalytic triad [active] 977880005026 potential glutamine specificity residues [chemical binding]; other site 977880005027 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 977880005028 ATP Binding subdomain [chemical binding]; other site 977880005029 Ligand Binding sites [chemical binding]; other site 977880005030 Dimerization subdomain; other site 977880005031 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 977880005032 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 977880005033 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 977880005034 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 977880005035 active site 977880005036 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 977880005037 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 977880005038 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 977880005039 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 977880005040 putative coenzyme Q binding site [chemical binding]; other site 977880005041 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 977880005042 SmpB-tmRNA interface; other site 977880005043 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 977880005044 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 977880005045 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 977880005046 phosphoenolpyruvate synthase; Validated; Region: PRK06464 977880005047 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 977880005048 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 977880005049 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 977880005050 PEP synthetase regulatory protein; Provisional; Region: PRK05339 977880005051 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 977880005052 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 977880005053 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 977880005054 RNA/DNA hybrid binding site [nucleotide binding]; other site 977880005055 active site 977880005056 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 977880005057 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 977880005058 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 977880005059 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 977880005060 active site 977880005061 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 977880005062 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 977880005063 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 977880005064 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 977880005065 trimer interface [polypeptide binding]; other site 977880005066 active site 977880005067 UDP-GlcNAc binding site [chemical binding]; other site 977880005068 lipid binding site [chemical binding]; lipid-binding site 977880005069 periplasmic chaperone; Provisional; Region: PRK10780 977880005070 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 977880005071 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 977880005072 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 977880005073 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 977880005074 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 977880005075 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 977880005076 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 977880005077 Surface antigen; Region: Bac_surface_Ag; pfam01103 977880005078 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 977880005079 zinc metallopeptidase RseP; Provisional; Region: PRK10779 977880005080 active site 977880005081 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 977880005082 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 977880005083 protein binding site [polypeptide binding]; other site 977880005084 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 977880005085 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 977880005086 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 977880005087 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 977880005088 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 977880005089 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 977880005090 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 977880005091 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 977880005092 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 977880005093 catalytic residue [active] 977880005094 putative FPP diphosphate binding site; other site 977880005095 putative FPP binding hydrophobic cleft; other site 977880005096 dimer interface [polypeptide binding]; other site 977880005097 putative IPP diphosphate binding site; other site 977880005098 ribosome recycling factor; Reviewed; Region: frr; PRK00083 977880005099 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 977880005100 hinge region; other site 977880005101 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 977880005102 putative nucleotide binding site [chemical binding]; other site 977880005103 uridine monophosphate binding site [chemical binding]; other site 977880005104 homohexameric interface [polypeptide binding]; other site 977880005105 elongation factor Ts; Provisional; Region: tsf; PRK09377 977880005106 UBA/TS-N domain; Region: UBA; pfam00627 977880005107 Elongation factor TS; Region: EF_TS; pfam00889 977880005108 Elongation factor TS; Region: EF_TS; pfam00889 977880005109 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 977880005110 rRNA interaction site [nucleotide binding]; other site 977880005111 S8 interaction site; other site 977880005112 putative laminin-1 binding site; other site 977880005113 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 977880005114 active site 977880005115 PII uridylyl-transferase; Provisional; Region: PRK03059 977880005116 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 977880005117 metal binding triad; other site 977880005118 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 977880005119 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 977880005120 Zn2+ binding site [ion binding]; other site 977880005121 Mg2+ binding site [ion binding]; other site 977880005122 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 977880005123 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 977880005124 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 977880005125 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 977880005126 RNA binding surface [nucleotide binding]; other site 977880005127 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 977880005128 active site 977880005129 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 977880005130 active site 977880005131 catalytic residues [active] 977880005132 metal binding site [ion binding]; metal-binding site 977880005133 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 977880005134 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 977880005135 nucleotide binding pocket [chemical binding]; other site 977880005136 K-X-D-G motif; other site 977880005137 catalytic site [active] 977880005138 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 977880005139 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 977880005140 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 977880005141 Dimer interface [polypeptide binding]; other site 977880005142 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 977880005143 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 977880005144 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 977880005145 Walker A/P-loop; other site 977880005146 ATP binding site [chemical binding]; other site 977880005147 Q-loop/lid; other site 977880005148 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 977880005149 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 977880005150 Q-loop/lid; other site 977880005151 ABC transporter signature motif; other site 977880005152 Walker B; other site 977880005153 D-loop; other site 977880005154 H-loop/switch region; other site 977880005155 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 977880005156 dinuclear metal binding motif [ion binding]; other site 977880005157 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 977880005158 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 977880005159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880005160 homodimer interface [polypeptide binding]; other site 977880005161 catalytic residue [active] 977880005162 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 977880005163 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 977880005164 trimer interface [polypeptide binding]; other site 977880005165 active site 977880005166 substrate binding site [chemical binding]; other site 977880005167 CoA binding site [chemical binding]; other site 977880005168 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 977880005169 ArsC family; Region: ArsC; pfam03960 977880005170 putative catalytic residues [active] 977880005171 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 977880005172 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 977880005173 metal binding site [ion binding]; metal-binding site 977880005174 dimer interface [polypeptide binding]; other site 977880005175 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 977880005176 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 977880005177 S-adenosylmethionine binding site [chemical binding]; other site 977880005178 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880005179 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880005180 putative substrate translocation pore; other site 977880005181 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880005182 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 977880005183 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880005184 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 977880005185 acyl-activating enzyme (AAE) consensus motif; other site 977880005186 acyl-activating enzyme (AAE) consensus motif; other site 977880005187 putative AMP binding site [chemical binding]; other site 977880005188 putative active site [active] 977880005189 putative CoA binding site [chemical binding]; other site 977880005190 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880005191 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880005192 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 977880005193 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 977880005194 NAD(P) binding site [chemical binding]; other site 977880005195 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880005196 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880005197 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880005198 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 977880005199 dimerization interface [polypeptide binding]; other site 977880005200 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 977880005201 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 977880005202 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 977880005203 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 977880005204 putative acyl-acceptor binding pocket; other site 977880005205 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 977880005206 active site 977880005207 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 977880005208 active site 977880005209 catalytic residues [active] 977880005210 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 977880005211 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 977880005212 Putative methyltransferase; Region: Methyltransf_20; pfam12147 977880005213 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 977880005214 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 977880005215 putative active site [active] 977880005216 Zn binding site [ion binding]; other site 977880005217 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 977880005218 SxDxEG motif; other site 977880005219 active site 977880005220 metal binding site [ion binding]; metal-binding site 977880005221 homopentamer interface [polypeptide binding]; other site 977880005222 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 977880005223 homodimer interface [polypeptide binding]; other site 977880005224 homotetramer interface [polypeptide binding]; other site 977880005225 active site pocket [active] 977880005226 cleavage site 977880005227 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 977880005228 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 977880005229 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 977880005230 dimer interface [polypeptide binding]; other site 977880005231 conserved gate region; other site 977880005232 putative PBP binding loops; other site 977880005233 ABC-ATPase subunit interface; other site 977880005234 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 977880005235 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 977880005236 dimer interface [polypeptide binding]; other site 977880005237 conserved gate region; other site 977880005238 putative PBP binding loops; other site 977880005239 ABC-ATPase subunit interface; other site 977880005240 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 977880005241 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 977880005242 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 977880005243 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880005244 Walker A/P-loop; other site 977880005245 ATP binding site [chemical binding]; other site 977880005246 Q-loop/lid; other site 977880005247 ABC transporter signature motif; other site 977880005248 Walker B; other site 977880005249 D-loop; other site 977880005250 H-loop/switch region; other site 977880005251 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 977880005252 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880005253 Walker A/P-loop; other site 977880005254 ATP binding site [chemical binding]; other site 977880005255 Q-loop/lid; other site 977880005256 ABC transporter signature motif; other site 977880005257 Walker B; other site 977880005258 D-loop; other site 977880005259 H-loop/switch region; other site 977880005260 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 977880005261 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; cl00635 977880005262 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 977880005263 catalytic nucleophile [active] 977880005264 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 977880005265 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 977880005266 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 977880005267 putative active site [active] 977880005268 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 977880005269 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 977880005270 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 977880005271 ABC transporter; Region: ABC_tran_2; pfam12848 977880005272 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 977880005273 disulfide bond formation protein B; Provisional; Region: PRK02110 977880005274 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 977880005275 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 977880005276 DNA repair protein RadA; Provisional; Region: PRK11823 977880005277 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 977880005278 Walker A motif; other site 977880005279 ATP binding site [chemical binding]; other site 977880005280 Walker B motif; other site 977880005281 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 977880005282 alanine racemase; Reviewed; Region: dadX; PRK03646 977880005283 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 977880005284 active site 977880005285 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 977880005286 substrate binding site [chemical binding]; other site 977880005287 catalytic residues [active] 977880005288 dimer interface [polypeptide binding]; other site 977880005289 lysophospholipid transporter LplT; Provisional; Region: PRK11195 977880005290 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 977880005291 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 977880005292 Fe-S cluster binding site [ion binding]; other site 977880005293 active site 977880005294 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 977880005295 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880005296 Coenzyme A binding pocket [chemical binding]; other site 977880005297 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 977880005298 Glycoprotease family; Region: Peptidase_M22; pfam00814 977880005299 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 977880005300 acyl-CoA binding pocket [chemical binding]; other site 977880005301 CoA binding site [chemical binding]; other site 977880005302 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880005303 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880005304 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880005305 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 977880005306 putative hydrophobic ligand binding site [chemical binding]; other site 977880005307 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 977880005308 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880005309 active site 977880005310 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 977880005311 PemK-like protein; Region: PemK; pfam02452 977880005312 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 977880005313 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 977880005314 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 977880005315 Beta-lactamase; Region: Beta-lactamase; pfam00144 977880005316 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 977880005317 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 977880005318 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 977880005319 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 977880005320 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 977880005321 active site pocket [active] 977880005322 Uncharacterized conserved protein [Function unknown]; Region: COG5649 977880005323 Domain of unknown function (DU1801); Region: DUF1801; cl17490 977880005324 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880005325 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 977880005326 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 977880005327 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 977880005328 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 977880005329 Ferritin-like domain; Region: Ferritin; pfam00210 977880005330 dinuclear metal binding motif [ion binding]; other site 977880005331 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 977880005332 Ligand Binding Site [chemical binding]; other site 977880005333 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 977880005334 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 977880005335 NAD(P) binding site [chemical binding]; other site 977880005336 homotetramer interface [polypeptide binding]; other site 977880005337 homodimer interface [polypeptide binding]; other site 977880005338 active site 977880005339 Phasin protein; Region: Phasin_2; pfam09361 977880005340 malate synthase A; Region: malate_syn_A; TIGR01344 977880005341 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 977880005342 active site 977880005343 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 977880005344 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 977880005345 motif II; other site 977880005346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880005347 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 977880005348 putative effector binding pocket; other site 977880005349 dimerization interface [polypeptide binding]; other site 977880005350 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 977880005351 Ligand Binding Site [chemical binding]; other site 977880005352 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 977880005353 isocitrate lyase; Provisional; Region: PRK15063 977880005354 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 977880005355 tetramer interface [polypeptide binding]; other site 977880005356 active site 977880005357 Mg2+/Mn2+ binding site [ion binding]; other site 977880005358 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880005359 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 977880005360 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 977880005361 putative active site pocket [active] 977880005362 dimerization interface [polypeptide binding]; other site 977880005363 putative catalytic residue [active] 977880005364 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 977880005365 thiamine pyrophosphate protein; Validated; Region: PRK08199 977880005366 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 977880005367 PYR/PP interface [polypeptide binding]; other site 977880005368 dimer interface [polypeptide binding]; other site 977880005369 TPP binding site [chemical binding]; other site 977880005370 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 977880005371 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 977880005372 TPP-binding site [chemical binding]; other site 977880005373 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880005374 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880005375 putative substrate translocation pore; other site 977880005376 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 977880005377 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 977880005378 active site 977880005379 phosphorylation site [posttranslational modification] 977880005380 intermolecular recognition site; other site 977880005381 dimerization interface [polypeptide binding]; other site 977880005382 LytTr DNA-binding domain; Region: LytTR; smart00850 977880005383 Histidine kinase; Region: His_kinase; pfam06580 977880005384 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 977880005385 Protein of unknown function (DUF962); Region: DUF962; cl01879 977880005386 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 977880005387 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 977880005388 substrate binding site [chemical binding]; other site 977880005389 dimerization interface [polypeptide binding]; other site 977880005390 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 977880005391 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 977880005392 Walker A/P-loop; other site 977880005393 ATP binding site [chemical binding]; other site 977880005394 Q-loop/lid; other site 977880005395 ABC transporter signature motif; other site 977880005396 Walker B; other site 977880005397 D-loop; other site 977880005398 H-loop/switch region; other site 977880005399 TOBE-like domain; Region: TOBE_3; pfam12857 977880005400 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 977880005401 dimer interface [polypeptide binding]; other site 977880005402 conserved gate region; other site 977880005403 putative PBP binding loops; other site 977880005404 ABC-ATPase subunit interface; other site 977880005405 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 977880005406 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 977880005407 dimer interface [polypeptide binding]; other site 977880005408 conserved gate region; other site 977880005409 putative PBP binding loops; other site 977880005410 ABC-ATPase subunit interface; other site 977880005411 Serine hydrolase; Region: Ser_hydrolase; pfam06821 977880005412 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 977880005413 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 977880005414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880005415 Walker A/P-loop; other site 977880005416 ATP binding site [chemical binding]; other site 977880005417 Q-loop/lid; other site 977880005418 ABC transporter signature motif; other site 977880005419 Walker B; other site 977880005420 D-loop; other site 977880005421 H-loop/switch region; other site 977880005422 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 977880005423 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 977880005424 putative PBP binding loops; other site 977880005425 dimer interface [polypeptide binding]; other site 977880005426 ABC-ATPase subunit interface; other site 977880005427 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 977880005428 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 977880005429 active site 977880005430 dimer interface [polypeptide binding]; other site 977880005431 non-prolyl cis peptide bond; other site 977880005432 insertion regions; other site 977880005433 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 977880005434 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 977880005435 substrate binding pocket [chemical binding]; other site 977880005436 membrane-bound complex binding site; other site 977880005437 hinge residues; other site 977880005438 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 977880005439 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 977880005440 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 977880005441 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 977880005442 substrate binding pocket [chemical binding]; other site 977880005443 membrane-bound complex binding site; other site 977880005444 hinge residues; other site 977880005445 Ferritin-like domain; Region: Ferritin; pfam00210 977880005446 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 977880005447 dinuclear metal binding motif [ion binding]; other site 977880005448 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 977880005449 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 977880005450 homodimer interface [polypeptide binding]; other site 977880005451 substrate-cofactor binding pocket; other site 977880005452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880005453 catalytic residue [active] 977880005454 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880005455 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880005456 putative substrate translocation pore; other site 977880005457 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 977880005458 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 977880005459 Coenzyme A binding pocket [chemical binding]; other site 977880005460 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 977880005461 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 977880005462 conserved cys residue [active] 977880005463 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 977880005464 Clp amino terminal domain; Region: Clp_N; pfam02861 977880005465 Clp amino terminal domain; Region: Clp_N; pfam02861 977880005466 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 977880005467 Walker A motif; other site 977880005468 ATP binding site [chemical binding]; other site 977880005469 Walker B motif; other site 977880005470 arginine finger; other site 977880005471 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 977880005472 Walker A motif; other site 977880005473 ATP binding site [chemical binding]; other site 977880005474 Walker B motif; other site 977880005475 arginine finger; other site 977880005476 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 977880005477 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 977880005478 active site 2 [active] 977880005479 active site 1 [active] 977880005480 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 977880005481 active site 2 [active] 977880005482 active site 1 [active] 977880005483 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 977880005484 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 977880005485 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880005486 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 977880005487 acyl-activating enzyme (AAE) consensus motif; other site 977880005488 putative AMP binding site [chemical binding]; other site 977880005489 putative active site [active] 977880005490 putative CoA binding site [chemical binding]; other site 977880005491 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 977880005492 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 977880005493 TM-ABC transporter signature motif; other site 977880005494 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 977880005495 TM-ABC transporter signature motif; other site 977880005496 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 977880005497 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 977880005498 Walker A/P-loop; other site 977880005499 ATP binding site [chemical binding]; other site 977880005500 Q-loop/lid; other site 977880005501 ABC transporter signature motif; other site 977880005502 Walker B; other site 977880005503 D-loop; other site 977880005504 H-loop/switch region; other site 977880005505 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 977880005506 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 977880005507 Walker A/P-loop; other site 977880005508 ATP binding site [chemical binding]; other site 977880005509 Q-loop/lid; other site 977880005510 ABC transporter signature motif; other site 977880005511 Walker B; other site 977880005512 D-loop; other site 977880005513 H-loop/switch region; other site 977880005514 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 977880005515 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 977880005516 putative ligand binding site [chemical binding]; other site 977880005517 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880005518 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880005519 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880005520 chromosome condensation membrane protein; Provisional; Region: PRK14196 977880005521 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 977880005522 MoaE homodimer interface [polypeptide binding]; other site 977880005523 MoaD interaction [polypeptide binding]; other site 977880005524 active site residues [active] 977880005525 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 977880005526 MoaE interaction surface [polypeptide binding]; other site 977880005527 MoeB interaction surface [polypeptide binding]; other site 977880005528 thiocarboxylated glycine; other site 977880005529 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 977880005530 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 977880005531 dimer interface [polypeptide binding]; other site 977880005532 putative functional site; other site 977880005533 putative MPT binding site; other site 977880005534 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 977880005535 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 977880005536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880005537 catalytic residue [active] 977880005538 homoserine dehydrogenase; Provisional; Region: PRK06349 977880005539 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 977880005540 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 977880005541 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 977880005542 aminotransferase AlaT; Validated; Region: PRK09265 977880005543 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 977880005544 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880005545 homodimer interface [polypeptide binding]; other site 977880005546 catalytic residue [active] 977880005547 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 977880005548 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 977880005549 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 977880005550 catalytic triad [active] 977880005551 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 977880005552 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 977880005553 putative active site [active] 977880005554 PhoH-like protein; Region: PhoH; pfam02562 977880005555 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 977880005556 NlpC/P60 family; Region: NLPC_P60; pfam00877 977880005557 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 977880005558 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 977880005559 replicative DNA helicase; Provisional; Region: PRK07004 977880005560 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 977880005561 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 977880005562 Walker A motif; other site 977880005563 ATP binding site [chemical binding]; other site 977880005564 Walker B motif; other site 977880005565 DNA binding loops [nucleotide binding] 977880005566 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 977880005567 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 977880005568 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 977880005569 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 977880005570 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 977880005571 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 977880005572 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 977880005573 active site 977880005574 homodimer interface [polypeptide binding]; other site 977880005575 homotetramer interface [polypeptide binding]; other site 977880005576 LexA repressor; Validated; Region: PRK00215 977880005577 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 977880005578 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 977880005579 Catalytic site [active] 977880005580 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 977880005581 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 977880005582 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 977880005583 FMN binding site [chemical binding]; other site 977880005584 active site 977880005585 catalytic residues [active] 977880005586 substrate binding site [chemical binding]; other site 977880005587 Predicted flavoprotein [General function prediction only]; Region: COG0431 977880005588 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 977880005589 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 977880005590 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 977880005591 substrate binding site [chemical binding]; other site 977880005592 oxyanion hole (OAH) forming residues; other site 977880005593 trimer interface [polypeptide binding]; other site 977880005594 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 977880005595 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 977880005596 Tar ligand binding domain homologue; Region: TarH; pfam02203 977880005597 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880005598 dimer interface [polypeptide binding]; other site 977880005599 putative CheW interface [polypeptide binding]; other site 977880005600 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 977880005601 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 977880005602 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 977880005603 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 977880005604 G1 box; other site 977880005605 putative GEF interaction site [polypeptide binding]; other site 977880005606 GTP/Mg2+ binding site [chemical binding]; other site 977880005607 Switch I region; other site 977880005608 G2 box; other site 977880005609 G3 box; other site 977880005610 Switch II region; other site 977880005611 G4 box; other site 977880005612 G5 box; other site 977880005613 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 977880005614 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 977880005615 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880005616 MarR family; Region: MarR_2; pfam12802 977880005617 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 977880005618 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 977880005619 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880005620 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880005621 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 977880005622 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880005623 putative substrate translocation pore; other site 977880005624 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880005625 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 977880005626 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880005627 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880005628 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 977880005629 active site pocket [active] 977880005630 oxyanion hole [active] 977880005631 catalytic triad [active] 977880005632 active site nucleophile [active] 977880005633 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 977880005634 hypothetical protein; Provisional; Region: PRK10481 977880005635 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 977880005636 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880005637 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 977880005638 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 977880005639 RNA binding site [nucleotide binding]; other site 977880005640 active site 977880005641 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 977880005642 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 977880005643 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 977880005644 translation initiation factor IF-2; Region: IF-2; TIGR00487 977880005645 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 977880005646 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 977880005647 G1 box; other site 977880005648 putative GEF interaction site [polypeptide binding]; other site 977880005649 GTP/Mg2+ binding site [chemical binding]; other site 977880005650 Switch I region; other site 977880005651 G2 box; other site 977880005652 G3 box; other site 977880005653 Switch II region; other site 977880005654 G4 box; other site 977880005655 G5 box; other site 977880005656 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 977880005657 Translation-initiation factor 2; Region: IF-2; pfam11987 977880005658 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 977880005659 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 977880005660 NusA N-terminal domain; Region: NusA_N; pfam08529 977880005661 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 977880005662 RNA binding site [nucleotide binding]; other site 977880005663 homodimer interface [polypeptide binding]; other site 977880005664 NusA-like KH domain; Region: KH_5; pfam13184 977880005665 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 977880005666 G-X-X-G motif; other site 977880005667 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 977880005668 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 977880005669 ribosome maturation protein RimP; Reviewed; Region: PRK00092 977880005670 Sm and related proteins; Region: Sm_like; cl00259 977880005671 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 977880005672 putative oligomer interface [polypeptide binding]; other site 977880005673 putative RNA binding site [nucleotide binding]; other site 977880005674 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 977880005675 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 977880005676 RNA binding surface [nucleotide binding]; other site 977880005677 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 977880005678 probable active site [active] 977880005679 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 977880005680 Family description; Region: DsbD_2; pfam13386 977880005681 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 977880005682 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 977880005683 ligand binding site [chemical binding]; other site 977880005684 flexible hinge region; other site 977880005685 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 977880005686 putative switch regulator; other site 977880005687 non-specific DNA interactions [nucleotide binding]; other site 977880005688 DNA binding site [nucleotide binding] 977880005689 sequence specific DNA binding site [nucleotide binding]; other site 977880005690 putative cAMP binding site [chemical binding]; other site 977880005691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 977880005692 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 977880005693 4Fe-4S binding domain; Region: Fer4_5; pfam12801 977880005694 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 977880005695 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 977880005696 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 977880005697 Cytochrome c; Region: Cytochrom_C; pfam00034 977880005698 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 977880005699 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 977880005700 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 977880005701 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 977880005702 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 977880005703 Low-spin heme binding site [chemical binding]; other site 977880005704 Putative water exit pathway; other site 977880005705 Binuclear center (active site) [active] 977880005706 Putative proton exit pathway; other site 977880005707 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 977880005708 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 977880005709 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 977880005710 Heavy-metal-associated domain; Region: HMA; pfam00403 977880005711 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 977880005712 Soluble P-type ATPase [General function prediction only]; Region: COG4087 977880005713 Predicted ATPase [General function prediction only]; Region: COG1485 977880005714 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880005715 Walker B; other site 977880005716 D-loop; other site 977880005717 H-loop/switch region; other site 977880005718 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 977880005719 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 977880005720 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 977880005721 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 977880005722 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 977880005723 E3 interaction surface; other site 977880005724 lipoyl attachment site [posttranslational modification]; other site 977880005725 e3 binding domain; Region: E3_binding; pfam02817 977880005726 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 977880005727 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 977880005728 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 977880005729 TPP-binding site [chemical binding]; other site 977880005730 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 977880005731 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 977880005732 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 977880005733 putative active site [active] 977880005734 catalytic site [active] 977880005735 putative metal binding site [ion binding]; other site 977880005736 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 977880005737 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 977880005738 Walker A/P-loop; other site 977880005739 ATP binding site [chemical binding]; other site 977880005740 Q-loop/lid; other site 977880005741 ABC transporter signature motif; other site 977880005742 Walker B; other site 977880005743 D-loop; other site 977880005744 H-loop/switch region; other site 977880005745 TOBE domain; Region: TOBE_2; pfam08402 977880005746 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 977880005747 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 977880005748 dimer interface [polypeptide binding]; other site 977880005749 conserved gate region; other site 977880005750 putative PBP binding loops; other site 977880005751 ABC-ATPase subunit interface; other site 977880005752 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 977880005753 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 977880005754 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 977880005755 dimer interface [polypeptide binding]; other site 977880005756 ABC-ATPase subunit interface; other site 977880005757 putative PBP binding loops; other site 977880005758 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 977880005759 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 977880005760 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 977880005761 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 977880005762 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 977880005763 active site 977880005764 phosphorylation site [posttranslational modification] 977880005765 intermolecular recognition site; other site 977880005766 dimerization interface [polypeptide binding]; other site 977880005767 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 977880005768 Walker A motif; other site 977880005769 ATP binding site [chemical binding]; other site 977880005770 Walker B motif; other site 977880005771 arginine finger; other site 977880005772 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880005773 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 977880005774 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 977880005775 dimer interface [polypeptide binding]; other site 977880005776 phosphorylation site [posttranslational modification] 977880005777 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 977880005778 ATP binding site [chemical binding]; other site 977880005779 Mg2+ binding site [ion binding]; other site 977880005780 G-X-G motif; other site 977880005781 glutamine synthetase; Provisional; Region: glnA; PRK09469 977880005782 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 977880005783 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 977880005784 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 977880005785 active site residue [active] 977880005786 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 977880005787 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 977880005788 putative MPT binding site; other site 977880005789 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 977880005790 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 977880005791 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 977880005792 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 977880005793 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 977880005794 NodB motif; other site 977880005795 active site 977880005796 catalytic site [active] 977880005797 metal binding site [ion binding]; metal-binding site 977880005798 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 977880005799 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 977880005800 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 977880005801 ATP binding site [chemical binding]; other site 977880005802 putative Mg++ binding site [ion binding]; other site 977880005803 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 977880005804 nucleotide binding region [chemical binding]; other site 977880005805 ATP-binding site [chemical binding]; other site 977880005806 Helicase associated domain (HA2); Region: HA2; pfam04408 977880005807 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 977880005808 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 977880005809 N-acetylglutamate synthase; Validated; Region: PRK05279 977880005810 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 977880005811 putative feedback inhibition sensing region; other site 977880005812 putative nucleotide binding site [chemical binding]; other site 977880005813 putative substrate binding site [chemical binding]; other site 977880005814 N-acetylglutamate synthase and related acetyltransferases [Amino acid transport and metabolism]; Region: ArgA; COG1246 977880005815 oxidative damage protection protein; Provisional; Region: PRK05408 977880005816 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 977880005817 tetramer (dimer of dimers) interface [polypeptide binding]; other site 977880005818 active site 977880005819 dimer interface [polypeptide binding]; other site 977880005820 transaldolase-like protein; Provisional; Region: PTZ00411 977880005821 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 977880005822 active site 977880005823 dimer interface [polypeptide binding]; other site 977880005824 catalytic residue [active] 977880005825 NAD-dependent deacetylase; Provisional; Region: PRK00481 977880005826 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 977880005827 NAD+ binding site [chemical binding]; other site 977880005828 substrate binding site [chemical binding]; other site 977880005829 Zn binding site [ion binding]; other site 977880005830 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 977880005831 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 977880005832 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 977880005833 ribonuclease R; Region: RNase_R; TIGR02063 977880005834 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 977880005835 RNB domain; Region: RNB; pfam00773 977880005836 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 977880005837 RNA binding site [nucleotide binding]; other site 977880005838 Rrf2 family protein; Region: rrf2_super; TIGR00738 977880005839 Transcriptional regulator; Region: Rrf2; pfam02082 977880005840 Transcriptional regulator; Region: Rrf2; cl17282 977880005841 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 977880005842 NADH(P)-binding; Region: NAD_binding_10; pfam13460 977880005843 NAD binding site [chemical binding]; other site 977880005844 substrate binding site [chemical binding]; other site 977880005845 putative active site [active] 977880005846 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 977880005847 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 977880005848 active site 977880005849 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 977880005850 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 977880005851 GDP-binding site [chemical binding]; other site 977880005852 ACT binding site; other site 977880005853 IMP binding site; other site 977880005854 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 977880005855 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 977880005856 dimer interface [polypeptide binding]; other site 977880005857 motif 1; other site 977880005858 active site 977880005859 motif 2; other site 977880005860 motif 3; other site 977880005861 HflC protein; Region: hflC; TIGR01932 977880005862 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 977880005863 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 977880005864 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 977880005865 HflK protein; Region: hflK; TIGR01933 977880005866 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 977880005867 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 977880005868 bacterial Hfq-like; Region: Hfq; cd01716 977880005869 hexamer interface [polypeptide binding]; other site 977880005870 Sm1 motif; other site 977880005871 RNA binding site [nucleotide binding]; other site 977880005872 Sm2 motif; other site 977880005873 GTP-binding protein Der; Reviewed; Region: PRK00093 977880005874 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 977880005875 G1 box; other site 977880005876 GTP/Mg2+ binding site [chemical binding]; other site 977880005877 Switch I region; other site 977880005878 G2 box; other site 977880005879 Switch II region; other site 977880005880 G3 box; other site 977880005881 G4 box; other site 977880005882 G5 box; other site 977880005883 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 977880005884 G1 box; other site 977880005885 GTP/Mg2+ binding site [chemical binding]; other site 977880005886 Switch I region; other site 977880005887 G2 box; other site 977880005888 G3 box; other site 977880005889 Switch II region; other site 977880005890 G4 box; other site 977880005891 G5 box; other site 977880005892 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 977880005893 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 977880005894 Trp docking motif [polypeptide binding]; other site 977880005895 active site 977880005896 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 977880005897 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 977880005898 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 977880005899 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 977880005900 dimer interface [polypeptide binding]; other site 977880005901 motif 1; other site 977880005902 active site 977880005903 motif 2; other site 977880005904 motif 3; other site 977880005905 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 977880005906 anticodon binding site; other site 977880005907 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 977880005908 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 977880005909 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 977880005910 Helix-turn-helix domain; Region: HTH_25; pfam13413 977880005911 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 977880005912 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 977880005913 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 977880005914 binding surface 977880005915 TPR motif; other site 977880005916 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 977880005917 binding surface 977880005918 TPR motif; other site 977880005919 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 977880005920 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 977880005921 FeS/SAM binding site; other site 977880005922 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 977880005923 active site 977880005924 multimer interface [polypeptide binding]; other site 977880005925 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 977880005926 YccA-like proteins; Region: YccA_like; cd10433 977880005927 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 977880005928 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 977880005929 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 977880005930 S-adenosylmethionine binding site [chemical binding]; other site 977880005931 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 977880005932 putative catalytic site [active] 977880005933 putative metal binding site [ion binding]; other site 977880005934 putative phosphate binding site [ion binding]; other site 977880005935 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 977880005936 active site 977880005937 catalytic site [active] 977880005938 substrate binding site [chemical binding]; other site 977880005939 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 977880005940 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 977880005941 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 977880005942 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 977880005943 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 977880005944 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 977880005945 DNA binding residues [nucleotide binding] 977880005946 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 977880005947 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 977880005948 Peptidase family M23; Region: Peptidase_M23; pfam01551 977880005949 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 977880005950 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 977880005951 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 977880005952 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 977880005953 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 977880005954 NAD(P) binding site [chemical binding]; other site 977880005955 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880005956 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 977880005957 trimer interface [polypeptide binding]; other site 977880005958 eyelet of channel; other site 977880005959 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 977880005960 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 977880005961 active site 977880005962 phosphorylation site [posttranslational modification] 977880005963 intermolecular recognition site; other site 977880005964 dimerization interface [polypeptide binding]; other site 977880005965 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 977880005966 DNA binding site [nucleotide binding] 977880005967 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 977880005968 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 977880005969 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 977880005970 dimer interface [polypeptide binding]; other site 977880005971 phosphorylation site [posttranslational modification] 977880005972 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 977880005973 ATP binding site [chemical binding]; other site 977880005974 Mg2+ binding site [ion binding]; other site 977880005975 G-X-G motif; other site 977880005976 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 977880005977 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 977880005978 dimer interface [polypeptide binding]; other site 977880005979 conserved gate region; other site 977880005980 putative PBP binding loops; other site 977880005981 ABC-ATPase subunit interface; other site 977880005982 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 977880005983 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 977880005984 Walker A/P-loop; other site 977880005985 ATP binding site [chemical binding]; other site 977880005986 Q-loop/lid; other site 977880005987 ABC transporter signature motif; other site 977880005988 Walker B; other site 977880005989 D-loop; other site 977880005990 H-loop/switch region; other site 977880005991 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 977880005992 NMT1-like family; Region: NMT1_2; pfam13379 977880005993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880005994 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 977880005995 active site 977880005996 catalytic residues [active] 977880005997 metal binding site [ion binding]; metal-binding site 977880005998 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880005999 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880006000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880006001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880006002 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 977880006003 putative dimerization interface [polypeptide binding]; other site 977880006004 recombination protein RecR; Reviewed; Region: recR; PRK00076 977880006005 RecR protein; Region: RecR; pfam02132 977880006006 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 977880006007 putative active site [active] 977880006008 putative metal-binding site [ion binding]; other site 977880006009 tetramer interface [polypeptide binding]; other site 977880006010 hypothetical protein; Validated; Region: PRK00153 977880006011 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 977880006012 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 977880006013 Walker A motif; other site 977880006014 ATP binding site [chemical binding]; other site 977880006015 Walker B motif; other site 977880006016 DNA polymerase III subunit delta'; Validated; Region: PRK08485 977880006017 arginine finger; other site 977880006018 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 977880006019 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 977880006020 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 977880006021 active site 977880006022 dimer interface [polypeptide binding]; other site 977880006023 effector binding site; other site 977880006024 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 977880006025 Family description; Region: UvrD_C_2; pfam13538 977880006026 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 977880006027 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 977880006028 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 977880006029 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 977880006030 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 977880006031 catalytic residues [active] 977880006032 transcription termination factor Rho; Provisional; Region: rho; PRK09376 977880006033 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 977880006034 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 977880006035 RNA binding site [nucleotide binding]; other site 977880006036 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 977880006037 multimer interface [polypeptide binding]; other site 977880006038 Walker A motif; other site 977880006039 ATP binding site [chemical binding]; other site 977880006040 Walker B motif; other site 977880006041 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 977880006042 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 977880006043 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 977880006044 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 977880006045 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 977880006046 cation binding site [ion binding]; other site 977880006047 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 977880006048 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 977880006049 HIGH motif; other site 977880006050 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 977880006051 active site 977880006052 KMSKS motif; other site 977880006053 hypothetical protein; Provisional; Region: PRK10279 977880006054 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 977880006055 nucleophile elbow; other site 977880006056 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 977880006057 NlpC/P60 family; Region: NLPC_P60; pfam00877 977880006058 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 977880006059 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880006060 Walker A/P-loop; other site 977880006061 ATP binding site [chemical binding]; other site 977880006062 Q-loop/lid; other site 977880006063 ABC transporter signature motif; other site 977880006064 Walker B; other site 977880006065 D-loop; other site 977880006066 H-loop/switch region; other site 977880006067 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 977880006068 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880006069 Walker A/P-loop; other site 977880006070 ATP binding site [chemical binding]; other site 977880006071 Q-loop/lid; other site 977880006072 ABC transporter signature motif; other site 977880006073 Walker B; other site 977880006074 D-loop; other site 977880006075 H-loop/switch region; other site 977880006076 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 977880006077 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 977880006078 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 977880006079 dimer interface [polypeptide binding]; other site 977880006080 conserved gate region; other site 977880006081 putative PBP binding loops; other site 977880006082 ABC-ATPase subunit interface; other site 977880006083 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 977880006084 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 977880006085 dimer interface [polypeptide binding]; other site 977880006086 conserved gate region; other site 977880006087 putative PBP binding loops; other site 977880006088 ABC-ATPase subunit interface; other site 977880006089 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 977880006090 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 977880006091 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 977880006092 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 977880006093 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 977880006094 NAD binding site [chemical binding]; other site 977880006095 homotetramer interface [polypeptide binding]; other site 977880006096 homodimer interface [polypeptide binding]; other site 977880006097 substrate binding site [chemical binding]; other site 977880006098 active site 977880006099 MFS transport protein AraJ; Provisional; Region: PRK10091 977880006100 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880006101 putative substrate translocation pore; other site 977880006102 Ion channel; Region: Ion_trans_2; pfam07885 977880006103 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 977880006104 multidrug resistance protein MdtN; Provisional; Region: PRK10476 977880006105 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880006106 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880006107 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 977880006108 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 977880006109 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 977880006110 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880006111 metal binding site [ion binding]; metal-binding site 977880006112 active site 977880006113 I-site; other site 977880006114 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 977880006115 active site 977880006116 catalytic site [active] 977880006117 substrate binding site [chemical binding]; other site 977880006118 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 977880006119 rRNA binding site [nucleotide binding]; other site 977880006120 predicted 30S ribosome binding site; other site 977880006121 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 977880006122 catalytic core [active] 977880006123 Putative hemolysin [General function prediction only]; Region: COG3176 977880006124 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 977880006125 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 977880006126 polyphosphate kinase; Provisional; Region: PRK05443 977880006127 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 977880006128 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 977880006129 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 977880006130 putative domain interface [polypeptide binding]; other site 977880006131 putative active site [active] 977880006132 catalytic site [active] 977880006133 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 977880006134 putative domain interface [polypeptide binding]; other site 977880006135 putative active site [active] 977880006136 catalytic site [active] 977880006137 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 977880006138 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 977880006139 PAS domain; Region: PAS; smart00091 977880006140 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 977880006141 dimer interface [polypeptide binding]; other site 977880006142 phosphorylation site [posttranslational modification] 977880006143 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 977880006144 ATP binding site [chemical binding]; other site 977880006145 Mg2+ binding site [ion binding]; other site 977880006146 G-X-G motif; other site 977880006147 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 977880006148 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 977880006149 active site 977880006150 phosphorylation site [posttranslational modification] 977880006151 intermolecular recognition site; other site 977880006152 dimerization interface [polypeptide binding]; other site 977880006153 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 977880006154 DNA binding site [nucleotide binding] 977880006155 transcriptional regulator PhoU; Provisional; Region: PRK11115 977880006156 PhoU domain; Region: PhoU; pfam01895 977880006157 PhoU domain; Region: PhoU; pfam01895 977880006158 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 977880006159 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 977880006160 Walker A/P-loop; other site 977880006161 ATP binding site [chemical binding]; other site 977880006162 Q-loop/lid; other site 977880006163 ABC transporter signature motif; other site 977880006164 Walker B; other site 977880006165 D-loop; other site 977880006166 H-loop/switch region; other site 977880006167 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 977880006168 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 977880006169 dimer interface [polypeptide binding]; other site 977880006170 conserved gate region; other site 977880006171 putative PBP binding loops; other site 977880006172 ABC-ATPase subunit interface; other site 977880006173 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 977880006174 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 977880006175 dimer interface [polypeptide binding]; other site 977880006176 conserved gate region; other site 977880006177 putative PBP binding loops; other site 977880006178 ABC-ATPase subunit interface; other site 977880006179 PBP superfamily domain; Region: PBP_like_2; cl17296 977880006180 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 977880006181 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 977880006182 active site 977880006183 substrate binding site [chemical binding]; other site 977880006184 metal binding site [ion binding]; metal-binding site 977880006185 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 977880006186 dihydropteroate synthase; Region: DHPS; TIGR01496 977880006187 substrate binding pocket [chemical binding]; other site 977880006188 dimer interface [polypeptide binding]; other site 977880006189 inhibitor binding site; inhibition site 977880006190 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 977880006191 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 977880006192 Walker A motif; other site 977880006193 ATP binding site [chemical binding]; other site 977880006194 Walker B motif; other site 977880006195 arginine finger; other site 977880006196 Peptidase family M41; Region: Peptidase_M41; pfam01434 977880006197 FtsJ-like methyltransferase; Region: FtsJ; cl17430 977880006198 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 977880006199 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 977880006200 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 977880006201 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 977880006202 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 977880006203 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 977880006204 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 977880006205 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 977880006206 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 977880006207 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 977880006208 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 977880006209 ATP-grasp domain; Region: ATP-grasp_4; cl17255 977880006210 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 977880006211 IMP binding site; other site 977880006212 dimer interface [polypeptide binding]; other site 977880006213 interdomain contacts; other site 977880006214 partial ornithine binding site; other site 977880006215 leucine export protein LeuE; Provisional; Region: PRK10958 977880006216 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 977880006217 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 977880006218 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 977880006219 catalytic site [active] 977880006220 subunit interface [polypeptide binding]; other site 977880006221 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 977880006222 homotrimer interaction site [polypeptide binding]; other site 977880006223 putative active site [active] 977880006224 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 977880006225 active site 977880006226 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880006227 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 977880006228 acyl-activating enzyme (AAE) consensus motif; other site 977880006229 AMP binding site [chemical binding]; other site 977880006230 active site 977880006231 CoA binding site [chemical binding]; other site 977880006232 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880006233 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880006234 active site 977880006235 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 977880006236 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 977880006237 substrate binding site [chemical binding]; other site 977880006238 oxyanion hole (OAH) forming residues; other site 977880006239 trimer interface [polypeptide binding]; other site 977880006240 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 977880006241 classical (c) SDRs; Region: SDR_c; cd05233 977880006242 NAD(P) binding site [chemical binding]; other site 977880006243 active site 977880006244 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 977880006245 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 977880006246 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 977880006247 active site 977880006248 FMN binding site [chemical binding]; other site 977880006249 substrate binding site [chemical binding]; other site 977880006250 homotetramer interface [polypeptide binding]; other site 977880006251 catalytic residue [active] 977880006252 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 977880006253 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880006254 acyl-activating enzyme (AAE) consensus motif; other site 977880006255 AMP binding site [chemical binding]; other site 977880006256 active site 977880006257 CoA binding site [chemical binding]; other site 977880006258 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 977880006259 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 977880006260 N-acetyl-D-glucosamine binding site [chemical binding]; other site 977880006261 catalytic residue [active] 977880006262 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 977880006263 Methyltransferase domain; Region: Methyltransf_11; pfam08241 977880006264 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 977880006265 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 977880006266 RNA/DNA hybrid binding site [nucleotide binding]; other site 977880006267 active site 977880006268 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 977880006269 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 977880006270 active site 977880006271 catalytic site [active] 977880006272 substrate binding site [chemical binding]; other site 977880006273 Isochorismatase family; Region: Isochorismatase; pfam00857 977880006274 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 977880006275 catalytic triad [active] 977880006276 conserved cis-peptide bond; other site 977880006277 HAMP domain; Region: HAMP; pfam00672 977880006278 dimerization interface [polypeptide binding]; other site 977880006279 PAS fold; Region: PAS_4; pfam08448 977880006280 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 977880006281 putative active site [active] 977880006282 heme pocket [chemical binding]; other site 977880006283 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 977880006284 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880006285 metal binding site [ion binding]; metal-binding site 977880006286 active site 977880006287 I-site; other site 977880006288 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 977880006289 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 977880006290 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 977880006291 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 977880006292 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 977880006293 dimer interface [polypeptide binding]; other site 977880006294 conserved gate region; other site 977880006295 putative PBP binding loops; other site 977880006296 ABC-ATPase subunit interface; other site 977880006297 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 977880006298 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 977880006299 putative PBP binding loops; other site 977880006300 dimer interface [polypeptide binding]; other site 977880006301 ABC-ATPase subunit interface; other site 977880006302 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 977880006303 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 977880006304 Walker A/P-loop; other site 977880006305 ATP binding site [chemical binding]; other site 977880006306 Q-loop/lid; other site 977880006307 ABC transporter signature motif; other site 977880006308 Walker B; other site 977880006309 D-loop; other site 977880006310 H-loop/switch region; other site 977880006311 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 977880006312 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880006313 Walker A/P-loop; other site 977880006314 ATP binding site [chemical binding]; other site 977880006315 Q-loop/lid; other site 977880006316 ABC transporter signature motif; other site 977880006317 Walker B; other site 977880006318 D-loop; other site 977880006319 H-loop/switch region; other site 977880006320 TOBE domain; Region: TOBE_2; pfam08402 977880006321 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 977880006322 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 977880006323 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 977880006324 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 977880006325 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 977880006326 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 977880006327 putative active site [active] 977880006328 putative substrate binding site [chemical binding]; other site 977880006329 putative cosubstrate binding site; other site 977880006330 catalytic site [active] 977880006331 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 977880006332 nudix motif; other site 977880006333 glycerol kinase; Provisional; Region: glpK; PRK00047 977880006334 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 977880006335 N- and C-terminal domain interface [polypeptide binding]; other site 977880006336 active site 977880006337 MgATP binding site [chemical binding]; other site 977880006338 catalytic site [active] 977880006339 metal binding site [ion binding]; metal-binding site 977880006340 glycerol binding site [chemical binding]; other site 977880006341 homotetramer interface [polypeptide binding]; other site 977880006342 homodimer interface [polypeptide binding]; other site 977880006343 FBP binding site [chemical binding]; other site 977880006344 protein IIAGlc interface [polypeptide binding]; other site 977880006345 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 977880006346 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 977880006347 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 977880006348 Predicted integral membrane protein [Function unknown]; Region: COG5615 977880006349 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 977880006350 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 977880006351 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 977880006352 dimerization interface [polypeptide binding]; other site 977880006353 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880006354 metal binding site [ion binding]; metal-binding site 977880006355 active site 977880006356 I-site; other site 977880006357 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 977880006358 ligand binding site [chemical binding]; other site 977880006359 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 977880006360 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 977880006361 homodimer interface [polypeptide binding]; other site 977880006362 substrate-cofactor binding pocket; other site 977880006363 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880006364 catalytic residue [active] 977880006365 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 977880006366 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880006367 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 977880006368 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 977880006369 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 977880006370 acetyl-CoA synthetase; Provisional; Region: PRK00174 977880006371 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 977880006372 active site 977880006373 CoA binding site [chemical binding]; other site 977880006374 acyl-activating enzyme (AAE) consensus motif; other site 977880006375 AMP binding site [chemical binding]; other site 977880006376 acetate binding site [chemical binding]; other site 977880006377 EamA-like transporter family; Region: EamA; pfam00892 977880006378 hypothetical protein; Provisional; Region: PRK05208 977880006379 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 977880006380 Fumarase C-terminus; Region: Fumerase_C; pfam05683 977880006381 glutamate racemase; Provisional; Region: PRK00865 977880006382 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 977880006383 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 977880006384 Walker A motif; other site 977880006385 ATP binding site [chemical binding]; other site 977880006386 Walker B motif; other site 977880006387 arginine finger; other site 977880006388 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 977880006389 Walker A motif; other site 977880006390 ATP binding site [chemical binding]; other site 977880006391 Walker B motif; other site 977880006392 arginine finger; other site 977880006393 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 977880006394 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 977880006395 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 977880006396 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 977880006397 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 977880006398 Hemin uptake protein hemP; Region: hemP; pfam10636 977880006399 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 977880006400 Predicted membrane protein [Function unknown]; Region: COG2855 977880006401 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 977880006402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880006403 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 977880006404 putative dimerization interface [polypeptide binding]; other site 977880006405 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 977880006406 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 977880006407 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 977880006408 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 977880006409 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 977880006410 GIY-YIG motif/motif A; other site 977880006411 active site 977880006412 catalytic site [active] 977880006413 putative DNA binding site [nucleotide binding]; other site 977880006414 metal binding site [ion binding]; metal-binding site 977880006415 UvrB/uvrC motif; Region: UVR; pfam02151 977880006416 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 977880006417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 977880006418 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 977880006419 elongation factor P; Validated; Region: PRK00529 977880006420 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 977880006421 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 977880006422 RNA binding site [nucleotide binding]; other site 977880006423 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 977880006424 RNA binding site [nucleotide binding]; other site 977880006425 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 977880006426 beta-hexosaminidase; Provisional; Region: PRK05337 977880006427 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 977880006428 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 977880006429 active site 977880006430 hydrophilic channel; other site 977880006431 dimerization interface [polypeptide binding]; other site 977880006432 catalytic residues [active] 977880006433 active site lid [active] 977880006434 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 977880006435 Recombination protein O N terminal; Region: RecO_N; pfam11967 977880006436 Recombination protein O C terminal; Region: RecO_C; pfam02565 977880006437 GTPase Era; Reviewed; Region: era; PRK00089 977880006438 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 977880006439 G1 box; other site 977880006440 GTP/Mg2+ binding site [chemical binding]; other site 977880006441 Switch I region; other site 977880006442 G2 box; other site 977880006443 Switch II region; other site 977880006444 G3 box; other site 977880006445 G4 box; other site 977880006446 G5 box; other site 977880006447 KH domain; Region: KH_2; pfam07650 977880006448 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 977880006449 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 977880006450 dimerization interface [polypeptide binding]; other site 977880006451 active site 977880006452 metal binding site [ion binding]; metal-binding site 977880006453 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 977880006454 signal peptidase I; Provisional; Region: PRK10861 977880006455 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 977880006456 Catalytic site [active] 977880006457 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 977880006458 GTP-binding protein LepA; Provisional; Region: PRK05433 977880006459 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 977880006460 G1 box; other site 977880006461 putative GEF interaction site [polypeptide binding]; other site 977880006462 GTP/Mg2+ binding site [chemical binding]; other site 977880006463 Switch I region; other site 977880006464 G2 box; other site 977880006465 G3 box; other site 977880006466 Switch II region; other site 977880006467 G4 box; other site 977880006468 G5 box; other site 977880006469 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 977880006470 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 977880006471 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 977880006472 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 977880006473 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 977880006474 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 977880006475 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 977880006476 protein binding site [polypeptide binding]; other site 977880006477 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 977880006478 protein binding site [polypeptide binding]; other site 977880006479 anti-sigma E factor; Provisional; Region: rseB; PRK09455 977880006480 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 977880006481 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 977880006482 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 977880006483 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1; Region: Sig-70_plancto1; TIGR02984 977880006484 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 977880006485 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 977880006486 DNA binding residues [nucleotide binding] 977880006487 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 977880006488 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 977880006489 dimer interface [polypeptide binding]; other site 977880006490 active site 977880006491 acyl carrier protein; Provisional; Region: acpP; PRK00982 977880006492 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 977880006493 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 977880006494 NAD(P) binding site [chemical binding]; other site 977880006495 homotetramer interface [polypeptide binding]; other site 977880006496 homodimer interface [polypeptide binding]; other site 977880006497 active site 977880006498 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 977880006499 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 977880006500 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 977880006501 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 977880006502 dimer interface [polypeptide binding]; other site 977880006503 active site 977880006504 CoA binding pocket [chemical binding]; other site 977880006505 putative phosphate acyltransferase; Provisional; Region: PRK05331 977880006506 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 977880006507 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 977880006508 Maf-like protein; Region: Maf; pfam02545 977880006509 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 977880006510 active site 977880006511 dimer interface [polypeptide binding]; other site 977880006512 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 977880006513 putative SAM binding site [chemical binding]; other site 977880006514 homodimer interface [polypeptide binding]; other site 977880006515 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 977880006516 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 977880006517 tandem repeat interface [polypeptide binding]; other site 977880006518 oligomer interface [polypeptide binding]; other site 977880006519 active site residues [active] 977880006520 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 977880006521 iron-sulfur cluster [ion binding]; other site 977880006522 [2Fe-2S] cluster binding site [ion binding]; other site 977880006523 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 977880006524 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 977880006525 motif II; other site 977880006526 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 977880006527 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 977880006528 RNA binding surface [nucleotide binding]; other site 977880006529 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 977880006530 active site 977880006531 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 977880006532 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 977880006533 homodimer interface [polypeptide binding]; other site 977880006534 oligonucleotide binding site [chemical binding]; other site 977880006535 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 977880006536 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 977880006537 FeS/SAM binding site; other site 977880006538 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 977880006539 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 977880006540 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 977880006541 GTP binding site; other site 977880006542 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 977880006543 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 977880006544 dimer interface [polypeptide binding]; other site 977880006545 putative functional site; other site 977880006546 putative MPT binding site; other site 977880006547 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 977880006548 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 977880006549 RmuC family; Region: RmuC; pfam02646 977880006550 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 977880006551 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 977880006552 dimerization interface [polypeptide binding]; other site 977880006553 ligand binding site [chemical binding]; other site 977880006554 NADP binding site [chemical binding]; other site 977880006555 catalytic site [active] 977880006556 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 977880006557 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 977880006558 transmembrane helices; other site 977880006559 Uncharacterized conserved protein [Function unknown]; Region: COG1556 977880006560 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 977880006561 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 977880006562 active site 977880006563 Ferredoxin [Energy production and conversion]; Region: COG1146 977880006564 4Fe-4S binding domain; Region: Fer4; cl02805 977880006565 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 977880006566 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 977880006567 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880006568 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 977880006569 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 977880006570 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880006571 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880006572 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880006573 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880006574 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880006575 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 977880006576 active site 977880006577 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880006578 Cupin domain; Region: Cupin_2; pfam07883 977880006579 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 977880006580 nodulation ABC transporter NodI; Provisional; Region: PRK13537 977880006581 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 977880006582 Walker A/P-loop; other site 977880006583 ATP binding site [chemical binding]; other site 977880006584 Q-loop/lid; other site 977880006585 ABC transporter signature motif; other site 977880006586 Walker B; other site 977880006587 D-loop; other site 977880006588 H-loop/switch region; other site 977880006589 ABC-2 type transporter; Region: ABC2_membrane; cl17235 977880006590 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 977880006591 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 977880006592 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 977880006593 homodimer interface [polypeptide binding]; other site 977880006594 substrate-cofactor binding pocket; other site 977880006595 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880006596 catalytic residue [active] 977880006597 amidophosphoribosyltransferase; Provisional; Region: PRK09246 977880006598 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 977880006599 active site 977880006600 tetramer interface [polypeptide binding]; other site 977880006601 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 977880006602 active site 977880006603 Colicin V production protein; Region: Colicin_V; pfam02674 977880006604 Sporulation related domain; Region: SPOR; pfam05036 977880006605 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 977880006606 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 977880006607 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 977880006608 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 977880006609 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 977880006610 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 977880006611 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 977880006612 substrate binding site [chemical binding]; other site 977880006613 active site 977880006614 catalytic residues [active] 977880006615 heterodimer interface [polypeptide binding]; other site 977880006616 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 977880006617 DNA methylase; Region: N6_N4_Mtase; pfam01555 977880006618 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 977880006619 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 977880006620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880006621 catalytic residue [active] 977880006622 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 977880006623 active site 977880006624 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 977880006625 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 977880006626 dimerization interface 3.5A [polypeptide binding]; other site 977880006627 active site 977880006628 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 977880006629 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 977880006630 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 977880006631 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 977880006632 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 977880006633 tartrate dehydrogenase; Region: TTC; TIGR02089 977880006634 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 977880006635 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 977880006636 substrate binding site [chemical binding]; other site 977880006637 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 977880006638 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 977880006639 substrate binding site [chemical binding]; other site 977880006640 ligand binding site [chemical binding]; other site 977880006641 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 977880006642 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 977880006643 Walker A/P-loop; other site 977880006644 ATP binding site [chemical binding]; other site 977880006645 Q-loop/lid; other site 977880006646 ABC transporter signature motif; other site 977880006647 Walker B; other site 977880006648 D-loop; other site 977880006649 H-loop/switch region; other site 977880006650 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 977880006651 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 977880006652 Walker A/P-loop; other site 977880006653 ATP binding site [chemical binding]; other site 977880006654 Q-loop/lid; other site 977880006655 ABC transporter signature motif; other site 977880006656 Walker B; other site 977880006657 D-loop; other site 977880006658 H-loop/switch region; other site 977880006659 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 977880006660 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 977880006661 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 977880006662 TM-ABC transporter signature motif; other site 977880006663 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 977880006664 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 977880006665 TM-ABC transporter signature motif; other site 977880006666 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 977880006667 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 977880006668 dimerization interface [polypeptide binding]; other site 977880006669 ligand binding site [chemical binding]; other site 977880006670 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 977880006671 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 977880006672 dimer interface [polypeptide binding]; other site 977880006673 active site 977880006674 citrylCoA binding site [chemical binding]; other site 977880006675 NADH binding [chemical binding]; other site 977880006676 cationic pore residues; other site 977880006677 oxalacetate/citrate binding site [chemical binding]; other site 977880006678 coenzyme A binding site [chemical binding]; other site 977880006679 catalytic triad [active] 977880006680 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 977880006681 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 977880006682 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 977880006683 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 977880006684 L-aspartate oxidase; Provisional; Region: PRK06175 977880006685 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 977880006686 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 977880006687 SdhC subunit interface [polypeptide binding]; other site 977880006688 proximal heme binding site [chemical binding]; other site 977880006689 cardiolipin binding site; other site 977880006690 Iron-sulfur protein interface; other site 977880006691 proximal quinone binding site [chemical binding]; other site 977880006692 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 977880006693 Iron-sulfur protein interface; other site 977880006694 proximal quinone binding site [chemical binding]; other site 977880006695 SdhD (CybS) interface [polypeptide binding]; other site 977880006696 proximal heme binding site [chemical binding]; other site 977880006697 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 977880006698 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880006699 DNA-binding site [nucleotide binding]; DNA binding site 977880006700 UTRA domain; Region: UTRA; pfam07702 977880006701 malate dehydrogenase; Provisional; Region: PRK05442 977880006702 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 977880006703 NAD(P) binding site [chemical binding]; other site 977880006704 dimer interface [polypeptide binding]; other site 977880006705 malate binding site [chemical binding]; other site 977880006706 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 977880006707 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 977880006708 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 977880006709 dimer interface [polypeptide binding]; other site 977880006710 active site 977880006711 citrylCoA binding site [chemical binding]; other site 977880006712 oxalacetate/citrate binding site [chemical binding]; other site 977880006713 coenzyme A binding site [chemical binding]; other site 977880006714 catalytic triad [active] 977880006715 aconitate hydratase; Provisional; Region: acnA; PRK12881 977880006716 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 977880006717 substrate binding site [chemical binding]; other site 977880006718 ligand binding site [chemical binding]; other site 977880006719 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 977880006720 substrate binding site [chemical binding]; other site 977880006721 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 977880006722 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 977880006723 S-adenosylmethionine binding site [chemical binding]; other site 977880006724 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 977880006725 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_2; cd08498 977880006726 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 977880006727 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 977880006728 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 977880006729 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 977880006730 Ligand Binding Site [chemical binding]; other site 977880006731 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 977880006732 putative active site [active] 977880006733 heat shock protein 90; Provisional; Region: PRK05218 977880006734 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 977880006735 ATP binding site [chemical binding]; other site 977880006736 Mg2+ binding site [ion binding]; other site 977880006737 G-X-G motif; other site 977880006738 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 977880006739 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880006740 DNA-binding site [nucleotide binding]; DNA binding site 977880006741 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 977880006742 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880006743 homodimer interface [polypeptide binding]; other site 977880006744 catalytic residue [active] 977880006745 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 977880006746 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 977880006747 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 977880006748 LysE type translocator; Region: LysE; cl00565 977880006749 EamA-like transporter family; Region: EamA; pfam00892 977880006750 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 977880006751 homotrimer interaction site [polypeptide binding]; other site 977880006752 putative active site [active] 977880006753 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 977880006754 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 977880006755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880006756 homodimer interface [polypeptide binding]; other site 977880006757 catalytic residue [active] 977880006758 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 977880006759 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 977880006760 putative C-terminal domain interface [polypeptide binding]; other site 977880006761 putative GSH binding site (G-site) [chemical binding]; other site 977880006762 putative dimer interface [polypeptide binding]; other site 977880006763 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 977880006764 putative N-terminal domain interface [polypeptide binding]; other site 977880006765 putative dimer interface [polypeptide binding]; other site 977880006766 putative substrate binding pocket (H-site) [chemical binding]; other site 977880006767 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 977880006768 L-lactate permease; Region: Lactate_perm; cl00701 977880006769 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 977880006770 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 977880006771 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 977880006772 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880006773 Walker A/P-loop; other site 977880006774 ATP binding site [chemical binding]; other site 977880006775 Q-loop/lid; other site 977880006776 ABC transporter signature motif; other site 977880006777 Walker B; other site 977880006778 D-loop; other site 977880006779 H-loop/switch region; other site 977880006780 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 977880006781 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 977880006782 CAP-like domain; other site 977880006783 active site 977880006784 primary dimer interface [polypeptide binding]; other site 977880006785 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 977880006786 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 977880006787 N-acetyl-D-glucosamine binding site [chemical binding]; other site 977880006788 catalytic residue [active] 977880006789 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 977880006790 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 977880006791 ATP binding site [chemical binding]; other site 977880006792 Mg2+ binding site [ion binding]; other site 977880006793 G-X-G motif; other site 977880006794 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 977880006795 anchoring element; other site 977880006796 dimer interface [polypeptide binding]; other site 977880006797 ATP binding site [chemical binding]; other site 977880006798 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 977880006799 active site 977880006800 metal binding site [ion binding]; metal-binding site 977880006801 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 977880006802 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880006803 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880006804 putative substrate translocation pore; other site 977880006805 ABC transporter ATPase component; Reviewed; Region: PRK11147 977880006806 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880006807 Walker A/P-loop; other site 977880006808 ATP binding site [chemical binding]; other site 977880006809 Q-loop/lid; other site 977880006810 ABC transporter signature motif; other site 977880006811 Walker B; other site 977880006812 D-loop; other site 977880006813 H-loop/switch region; other site 977880006814 ABC transporter; Region: ABC_tran_2; pfam12848 977880006815 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 977880006816 benzoate transporter; Region: benE; TIGR00843 977880006817 Benzoate membrane transport protein; Region: BenE; pfam03594 977880006818 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 977880006819 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 977880006820 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 977880006821 putative active site [active] 977880006822 putative metal binding site [ion binding]; other site 977880006823 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880006824 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 977880006825 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 977880006826 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 977880006827 active site 977880006828 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 977880006829 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 977880006830 Walker A motif; other site 977880006831 ATP binding site [chemical binding]; other site 977880006832 Walker B motif; other site 977880006833 arginine finger; other site 977880006834 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 977880006835 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 977880006836 ligand binding site [chemical binding]; other site 977880006837 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 977880006838 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 977880006839 ligand binding site [chemical binding]; other site 977880006840 flexible hinge region; other site 977880006841 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_C39B; cd02418 977880006842 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 977880006843 putative active site [active] 977880006844 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 977880006845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880006846 Walker A/P-loop; other site 977880006847 ATP binding site [chemical binding]; other site 977880006848 Q-loop/lid; other site 977880006849 ABC transporter signature motif; other site 977880006850 Walker B; other site 977880006851 D-loop; other site 977880006852 H-loop/switch region; other site 977880006853 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 977880006854 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 977880006855 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 977880006856 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880006857 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880006858 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 977880006859 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 977880006860 phosphopeptide binding site; other site 977880006861 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 977880006862 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 977880006863 phosphopeptide binding site; other site 977880006864 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 977880006865 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 977880006866 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 977880006867 Uncharacterized conserved protein [Function unknown]; Region: COG1262 977880006868 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 977880006869 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 977880006870 Catalytic domain of Protein Kinases; Region: PKc; cd00180 977880006871 active site 977880006872 ATP binding site [chemical binding]; other site 977880006873 substrate binding site [chemical binding]; other site 977880006874 activation loop (A-loop); other site 977880006875 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 977880006876 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 977880006877 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 977880006878 DEAD-like helicases superfamily; Region: DEXDc; smart00487 977880006879 ATP binding site [chemical binding]; other site 977880006880 Mg++ binding site [ion binding]; other site 977880006881 motif III; other site 977880006882 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 977880006883 nucleotide binding region [chemical binding]; other site 977880006884 ATP-binding site [chemical binding]; other site 977880006885 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 977880006886 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 977880006887 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 977880006888 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 977880006889 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 977880006890 thymidylate synthase; Reviewed; Region: thyA; PRK01827 977880006891 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 977880006892 dimerization interface [polypeptide binding]; other site 977880006893 active site 977880006894 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 977880006895 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 977880006896 folate binding site [chemical binding]; other site 977880006897 NADP+ binding site [chemical binding]; other site 977880006898 peptidase PmbA; Provisional; Region: PRK11040 977880006899 hypothetical protein; Provisional; Region: PRK05255 977880006900 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 977880006901 MPT binding site; other site 977880006902 trimer interface [polypeptide binding]; other site 977880006903 Membrane transport protein; Region: Mem_trans; cl09117 977880006904 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 977880006905 catalytic site [active] 977880006906 putative active site [active] 977880006907 putative substrate binding site [chemical binding]; other site 977880006908 dimer interface [polypeptide binding]; other site 977880006909 Peptidase family M48; Region: Peptidase_M48; pfam01435 977880006910 GTPase RsgA; Reviewed; Region: PRK00098 977880006911 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 977880006912 RNA binding site [nucleotide binding]; other site 977880006913 homodimer interface [polypeptide binding]; other site 977880006914 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 977880006915 GTPase/Zn-binding domain interface [polypeptide binding]; other site 977880006916 GTP/Mg2+ binding site [chemical binding]; other site 977880006917 G4 box; other site 977880006918 G5 box; other site 977880006919 G1 box; other site 977880006920 Switch I region; other site 977880006921 G2 box; other site 977880006922 G3 box; other site 977880006923 Switch II region; other site 977880006924 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 977880006925 CobD/CbiB family protein; Provisional; Region: PRK07630 977880006926 Pirin-related protein [General function prediction only]; Region: COG1741 977880006927 Pirin; Region: Pirin; pfam02678 977880006928 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 977880006929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880006930 The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; Region: PBP2_HupR; cd08431 977880006931 putative dimerization interface [polypeptide binding]; other site 977880006932 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 977880006933 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 977880006934 active site 977880006935 HIGH motif; other site 977880006936 nucleotide binding site [chemical binding]; other site 977880006937 active site 977880006938 KMSKS motif; other site 977880006939 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 977880006940 DEAD-like helicases superfamily; Region: DEXDc; smart00487 977880006941 ATP binding site [chemical binding]; other site 977880006942 Mg++ binding site [ion binding]; other site 977880006943 motif III; other site 977880006944 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 977880006945 nucleotide binding region [chemical binding]; other site 977880006946 ATP-binding site [chemical binding]; other site 977880006947 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880006948 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 977880006949 Coenzyme A transferase; Region: CoA_trans; smart00882 977880006950 Coenzyme A transferase; Region: CoA_trans; cl17247 977880006951 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880006952 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 977880006953 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880006954 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 977880006955 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 977880006956 Phosphoesterase family; Region: Phosphoesterase; pfam04185 977880006957 Domain of unknown function (DUF756); Region: DUF756; pfam05506 977880006958 Domain of unknown function (DUF756); Region: DUF756; pfam05506 977880006959 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 977880006960 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880006961 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 977880006962 DNA binding residues [nucleotide binding] 977880006963 dimerization interface [polypeptide binding]; other site 977880006964 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 977880006965 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 977880006966 active site 977880006967 catalytic residues [active] 977880006968 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 977880006969 catalytic residues [active] 977880006970 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 977880006971 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 977880006972 catalytic residue [active] 977880006973 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 977880006974 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 977880006975 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 977880006976 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 977880006977 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 977880006978 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 977880006979 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 977880006980 DNA binding residues [nucleotide binding] 977880006981 DNA primase; Validated; Region: dnaG; PRK05667 977880006982 CHC2 zinc finger; Region: zf-CHC2; pfam01807 977880006983 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 977880006984 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 977880006985 active site 977880006986 metal binding site [ion binding]; metal-binding site 977880006987 interdomain interaction site; other site 977880006988 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 977880006989 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 977880006990 Yqey-like protein; Region: YqeY; pfam09424 977880006991 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 977880006992 HI0933-like protein; Region: HI0933_like; pfam03486 977880006993 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880006994 UGMP family protein; Validated; Region: PRK09604 977880006995 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 977880006996 putative GTP cyclohydrolase; Provisional; Region: PRK13674 977880006997 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 977880006998 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 977880006999 TPP-binding site; other site 977880007000 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 977880007001 PYR/PP interface [polypeptide binding]; other site 977880007002 dimer interface [polypeptide binding]; other site 977880007003 TPP binding site [chemical binding]; other site 977880007004 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 977880007005 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 977880007006 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 977880007007 substrate binding pocket [chemical binding]; other site 977880007008 chain length determination region; other site 977880007009 substrate-Mg2+ binding site; other site 977880007010 catalytic residues [active] 977880007011 aspartate-rich region 1; other site 977880007012 active site lid residues [active] 977880007013 aspartate-rich region 2; other site 977880007014 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 977880007015 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 977880007016 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 977880007017 [2Fe-2S] cluster binding site [ion binding]; other site 977880007018 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 977880007019 alpha subunit interface [polypeptide binding]; other site 977880007020 active site 977880007021 substrate binding site [chemical binding]; other site 977880007022 Fe binding site [ion binding]; other site 977880007023 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 977880007024 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 977880007025 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 977880007026 active site residue [active] 977880007027 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 977880007028 active site residue [active] 977880007029 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 977880007030 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 977880007031 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 977880007032 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 977880007033 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 977880007034 K+-transporting ATPase, c chain; Region: KdpC; cl00944 977880007035 DNA polymerase I; Provisional; Region: PRK05755 977880007036 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 977880007037 active site 977880007038 metal binding site 1 [ion binding]; metal-binding site 977880007039 putative 5' ssDNA interaction site; other site 977880007040 metal binding site 3; metal-binding site 977880007041 metal binding site 2 [ion binding]; metal-binding site 977880007042 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 977880007043 putative DNA binding site [nucleotide binding]; other site 977880007044 putative metal binding site [ion binding]; other site 977880007045 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 977880007046 active site 977880007047 catalytic site [active] 977880007048 substrate binding site [chemical binding]; other site 977880007049 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 977880007050 active site 977880007051 DNA binding site [nucleotide binding] 977880007052 catalytic site [active] 977880007053 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 977880007054 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 977880007055 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 977880007056 putative active site [active] 977880007057 putative substrate binding site [chemical binding]; other site 977880007058 ATP binding site [chemical binding]; other site 977880007059 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 977880007060 Part of AAA domain; Region: AAA_19; pfam13245 977880007061 Family description; Region: UvrD_C_2; pfam13538 977880007062 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 977880007063 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 977880007064 active site 977880007065 HIGH motif; other site 977880007066 nucleotide binding site [chemical binding]; other site 977880007067 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 977880007068 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 977880007069 active site 977880007070 KMSKS motif; other site 977880007071 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 977880007072 tRNA binding surface [nucleotide binding]; other site 977880007073 anticodon binding site; other site 977880007074 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 977880007075 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 977880007076 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 977880007077 active site 977880007078 tetramer interface; other site 977880007079 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 977880007080 CPxP motif; other site 977880007081 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 977880007082 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 977880007083 nudix motif; other site 977880007084 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 977880007085 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 977880007086 tetramer interface [polypeptide binding]; other site 977880007087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880007088 catalytic residue [active] 977880007089 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 977880007090 active site 1 [active] 977880007091 dimer interface [polypeptide binding]; other site 977880007092 hexamer interface [polypeptide binding]; other site 977880007093 active site 2 [active] 977880007094 aldolase II superfamily protein; Provisional; Region: PRK07044 977880007095 intersubunit interface [polypeptide binding]; other site 977880007096 active site 977880007097 Zn2+ binding site [ion binding]; other site 977880007098 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 977880007099 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880007100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880007101 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 977880007102 dimerization interface [polypeptide binding]; other site 977880007103 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 977880007104 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 977880007105 dimer interface [polypeptide binding]; other site 977880007106 active site residues [active] 977880007107 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 977880007108 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 977880007109 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 977880007110 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 977880007111 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 977880007112 motif 1; other site 977880007113 active site 977880007114 motif 2; other site 977880007115 motif 3; other site 977880007116 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 977880007117 DHHA1 domain; Region: DHHA1; pfam02272 977880007118 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880007119 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880007120 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 977880007121 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880007122 potassium/proton antiporter; Reviewed; Region: PRK05326 977880007123 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 977880007124 TrkA-C domain; Region: TrkA_C; pfam02080 977880007125 Transporter associated domain; Region: CorC_HlyC; smart01091 977880007126 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 977880007127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 977880007128 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880007129 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880007130 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 977880007131 dimerization interface [polypeptide binding]; other site 977880007132 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880007133 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 977880007134 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 977880007135 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 977880007136 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 977880007137 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880007138 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880007139 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 977880007140 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 977880007141 active site 977880007142 HIGH motif; other site 977880007143 nucleotide binding site [chemical binding]; other site 977880007144 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 977880007145 KMSKS motif; other site 977880007146 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 977880007147 S4 domain; Region: S4_2; pfam13275 977880007148 Predicted membrane protein [Function unknown]; Region: COG3686 977880007149 Uncharacterized conserved protein [Function unknown]; Region: COG2353 977880007150 YaeQ protein; Region: YaeQ; pfam07152 977880007151 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 977880007152 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 977880007153 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 977880007154 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 977880007155 putative active site pocket [active] 977880007156 dimerization interface [polypeptide binding]; other site 977880007157 putative catalytic residue [active] 977880007158 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 977880007159 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; cl02529 977880007160 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 977880007161 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 977880007162 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 977880007163 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880007164 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 977880007165 acyl-activating enzyme (AAE) consensus motif; other site 977880007166 putative AMP binding site [chemical binding]; other site 977880007167 putative active site [active] 977880007168 putative CoA binding site [chemical binding]; other site 977880007169 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 977880007170 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 977880007171 catalytic residues [active] 977880007172 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 977880007173 Hemerythrin; Region: Hemerythrin; cd12107 977880007174 Fe binding site [ion binding]; other site 977880007175 AAA domain; Region: AAA_33; pfam13671 977880007176 RNA helicase; Region: RNA_helicase; pfam00910 977880007177 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 977880007178 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 977880007179 putative ATP binding site [chemical binding]; other site 977880007180 putative substrate interface [chemical binding]; other site 977880007181 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 977880007182 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 977880007183 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880007184 putative substrate translocation pore; other site 977880007185 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880007186 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 977880007187 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 977880007188 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 977880007189 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 977880007190 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 977880007191 S-adenosylmethionine binding site [chemical binding]; other site 977880007192 Protein of unknown function DUF72; Region: DUF72; pfam01904 977880007193 methionine sulfoxide reductase A; Provisional; Region: PRK14054 977880007194 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 977880007195 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880007196 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 977880007197 acyl-activating enzyme (AAE) consensus motif; other site 977880007198 acyl-activating enzyme (AAE) consensus motif; other site 977880007199 putative AMP binding site [chemical binding]; other site 977880007200 putative active site [active] 977880007201 putative CoA binding site [chemical binding]; other site 977880007202 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880007203 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 977880007204 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 977880007205 active site 977880007206 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880007207 PGAP1-like protein; Region: PGAP1; pfam07819 977880007208 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 977880007209 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880007210 MarR family; Region: MarR_2; pfam12802 977880007211 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 977880007212 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 977880007213 putative DNA binding site [nucleotide binding]; other site 977880007214 putative Zn2+ binding site [ion binding]; other site 977880007215 AsnC family; Region: AsnC_trans_reg; pfam01037 977880007216 arylformamidase; Region: trp_arylform; TIGR03035 977880007217 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 977880007218 kynureninase; Region: kynureninase; TIGR01814 977880007219 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 977880007220 catalytic residue [active] 977880007221 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 977880007222 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 977880007223 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 977880007224 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880007225 FAD binding site [chemical binding]; other site 977880007226 substrate binding pocket [chemical binding]; other site 977880007227 catalytic base [active] 977880007228 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 977880007229 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 977880007230 dimer interface [polypeptide binding]; other site 977880007231 decamer (pentamer of dimers) interface [polypeptide binding]; other site 977880007232 catalytic triad [active] 977880007233 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 977880007234 Predicted membrane protein [Function unknown]; Region: COG5393 977880007235 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 977880007236 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 977880007237 PAS fold; Region: PAS_3; pfam08447 977880007238 putative active site [active] 977880007239 heme pocket [chemical binding]; other site 977880007240 PAS fold; Region: PAS; pfam00989 977880007241 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 977880007242 putative active site [active] 977880007243 heme pocket [chemical binding]; other site 977880007244 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 977880007245 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880007246 metal binding site [ion binding]; metal-binding site 977880007247 active site 977880007248 I-site; other site 977880007249 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 977880007250 Predicted transporter component [General function prediction only]; Region: COG2391 977880007251 Sulphur transport; Region: Sulf_transp; pfam04143 977880007252 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 977880007253 Ligand Binding Site [chemical binding]; other site 977880007254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 977880007255 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 977880007256 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 977880007257 ligand binding site [chemical binding]; other site 977880007258 translocation protein TolB; Provisional; Region: tolB; PRK02889 977880007259 TolB amino-terminal domain; Region: TolB_N; pfam04052 977880007260 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 977880007261 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 977880007262 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 977880007263 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 977880007264 TolA protein; Region: tolA_full; TIGR02794 977880007265 TonB C terminal; Region: TonB_2; pfam13103 977880007266 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 977880007267 TolR protein; Region: tolR; TIGR02801 977880007268 TolQ protein; Region: tolQ; TIGR02796 977880007269 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 977880007270 active site 977880007271 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 977880007272 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 977880007273 dimer interface [polypeptide binding]; other site 977880007274 active site 977880007275 glycine-pyridoxal phosphate binding site [chemical binding]; other site 977880007276 folate binding site [chemical binding]; other site 977880007277 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 977880007278 ATP cone domain; Region: ATP-cone; pfam03477 977880007279 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 977880007280 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 977880007281 legume lectins; Region: lectin_L-type; cl14058 977880007282 homodimer interaction site [polypeptide binding]; other site 977880007283 carbohydrate binding site [chemical binding]; other site 977880007284 metal binding site [ion binding]; metal-binding site 977880007285 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 977880007286 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 977880007287 PilX N-terminal; Region: PilX_N; pfam14341 977880007288 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 977880007289 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 977880007290 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 977880007291 Type II transport protein GspH; Region: GspH; pfam12019 977880007292 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 977880007293 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 977880007294 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 977880007295 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 977880007296 Type II transport protein GspH; Region: GspH; pfam12019 977880007297 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 977880007298 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 977880007299 catalytic motif [active] 977880007300 Zn binding site [ion binding]; other site 977880007301 RibD C-terminal domain; Region: RibD_C; cl17279 977880007302 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 977880007303 Lumazine binding domain; Region: Lum_binding; pfam00677 977880007304 Lumazine binding domain; Region: Lum_binding; pfam00677 977880007305 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 977880007306 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 977880007307 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 977880007308 dimerization interface [polypeptide binding]; other site 977880007309 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 977880007310 homopentamer interface [polypeptide binding]; other site 977880007311 active site 977880007312 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 977880007313 putative RNA binding site [nucleotide binding]; other site 977880007314 aminotransferase; Validated; Region: PRK07337 977880007315 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 977880007316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880007317 homodimer interface [polypeptide binding]; other site 977880007318 catalytic residue [active] 977880007319 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 977880007320 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 977880007321 N-acetyl-D-glucosamine binding site [chemical binding]; other site 977880007322 catalytic residue [active] 977880007323 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 977880007324 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 977880007325 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 977880007326 acyl-activating enzyme (AAE) consensus motif; other site 977880007327 putative AMP binding site [chemical binding]; other site 977880007328 putative active site [active] 977880007329 putative CoA binding site [chemical binding]; other site 977880007330 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 977880007331 active site 977880007332 catalytic residues [active] 977880007333 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 977880007334 S-adenosylmethionine binding site [chemical binding]; other site 977880007335 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 977880007336 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 977880007337 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880007338 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880007339 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 977880007340 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880007341 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880007342 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 977880007343 Protein export membrane protein; Region: SecD_SecF; cl14618 977880007344 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 977880007345 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 977880007346 S-adenosylmethionine binding site [chemical binding]; other site 977880007347 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 977880007348 active site residue [active] 977880007349 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 977880007350 META domain; Region: META; pfam03724 977880007351 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 977880007352 O-Antigen ligase; Region: Wzy_C; pfam04932 977880007353 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 977880007354 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 977880007355 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 977880007356 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880007357 putative ADP-binding pocket [chemical binding]; other site 977880007358 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 977880007359 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 977880007360 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 977880007361 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 977880007362 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 977880007363 putative active site [active] 977880007364 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 977880007365 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 977880007366 active site 977880007367 substrate binding site [chemical binding]; other site 977880007368 metal binding site [ion binding]; metal-binding site 977880007369 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880007370 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 977880007371 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 977880007372 Bacterial sugar transferase; Region: Bac_transf; pfam02397 977880007373 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880007374 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 977880007375 EPS-associated transcriptional regulator, MarR family; Region: MarR_EPS; TIGR04176 977880007376 putative DNA binding site [nucleotide binding]; other site 977880007377 putative Zn2+ binding site [ion binding]; other site 977880007378 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880007379 Coenzyme A binding pocket [chemical binding]; other site 977880007380 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 977880007381 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 977880007382 inhibitor-cofactor binding pocket; inhibition site 977880007383 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880007384 catalytic residue [active] 977880007385 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 977880007386 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 977880007387 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 977880007388 catalytic residue [active] 977880007389 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 977880007390 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 977880007391 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 977880007392 NAD(P) binding site [chemical binding]; other site 977880007393 homodimer interface [polypeptide binding]; other site 977880007394 substrate binding site [chemical binding]; other site 977880007395 active site 977880007396 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 977880007397 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 977880007398 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 977880007399 active site 977880007400 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 977880007401 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 977880007402 active site 977880007403 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880007404 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 977880007405 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880007406 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 977880007407 Transposase; Region: DDE_Tnp_ISL3; pfam01610 977880007408 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880007409 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 977880007410 S-adenosylmethionine binding site [chemical binding]; other site 977880007411 Chain length determinant protein; Region: Wzz; cl15801 977880007412 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 977880007413 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 977880007414 Mg++ binding site [ion binding]; other site 977880007415 putative catalytic motif [active] 977880007416 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 977880007417 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 977880007418 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 977880007419 substrate binding site; other site 977880007420 tetramer interface; other site 977880007421 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 977880007422 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 977880007423 NADP binding site [chemical binding]; other site 977880007424 active site 977880007425 putative substrate binding site [chemical binding]; other site 977880007426 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 977880007427 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 977880007428 NAD binding site [chemical binding]; other site 977880007429 substrate binding site [chemical binding]; other site 977880007430 homodimer interface [polypeptide binding]; other site 977880007431 active site 977880007432 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 977880007433 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 977880007434 active site 977880007435 metal binding site [ion binding]; metal-binding site 977880007436 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 977880007437 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 977880007438 putative acyl-acceptor binding pocket; other site 977880007439 dihydroorotase; Provisional; Region: PRK07627 977880007440 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 977880007441 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 977880007442 active site 977880007443 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 977880007444 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 977880007445 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 977880007446 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 977880007447 active site 977880007448 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 977880007449 hypothetical protein; Validated; Region: PRK00228 977880007450 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 977880007451 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 977880007452 RNA binding surface [nucleotide binding]; other site 977880007453 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 977880007454 active site 977880007455 uracil binding [chemical binding]; other site 977880007456 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 977880007457 DNA photolyase; Region: DNA_photolyase; pfam00875 977880007458 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 977880007459 HemY protein N-terminus; Region: HemY_N; pfam07219 977880007460 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 977880007461 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 977880007462 active site 977880007463 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 977880007464 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 977880007465 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 977880007466 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 977880007467 domain interfaces; other site 977880007468 active site 977880007469 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 977880007470 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 977880007471 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 977880007472 dinuclear metal binding motif [ion binding]; other site 977880007473 RNA polymerase sigma factor; Provisional; Region: PRK12514 977880007474 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 977880007475 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 977880007476 DNA binding residues [nucleotide binding] 977880007477 Anti-sigma-K factor rskA; Region: RskA; pfam10099 977880007478 argininosuccinate lyase; Provisional; Region: PRK00855 977880007479 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 977880007480 active sites [active] 977880007481 tetramer interface [polypeptide binding]; other site 977880007482 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 977880007483 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 977880007484 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 977880007485 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 977880007486 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 977880007487 oligomeric interface; other site 977880007488 putative active site [active] 977880007489 homodimer interface [polypeptide binding]; other site 977880007490 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 977880007491 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 977880007492 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 977880007493 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 977880007494 catalytic residue [active] 977880007495 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 977880007496 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 977880007497 trimer interface [polypeptide binding]; other site 977880007498 active site 977880007499 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 977880007500 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 977880007501 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 977880007502 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 977880007503 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 977880007504 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 977880007505 [4Fe-4S] binding site [ion binding]; other site 977880007506 molybdopterin cofactor binding site; other site 977880007507 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 977880007508 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 977880007509 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 977880007510 molybdopterin cofactor binding site; other site 977880007511 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 977880007512 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 977880007513 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 977880007514 4Fe-4S binding domain; Region: Fer4; pfam00037 977880007515 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 977880007516 4Fe-4S binding domain; Region: Fer4; pfam00037 977880007517 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 977880007518 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 977880007519 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 977880007520 antiporter inner membrane protein; Provisional; Region: PRK11670 977880007521 Domain of unknown function DUF59; Region: DUF59; pfam01883 977880007522 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 977880007523 Walker A motif; other site 977880007524 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 977880007525 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 977880007526 ligand binding site [chemical binding]; other site 977880007527 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 977880007528 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 977880007529 active site 977880007530 HIGH motif; other site 977880007531 KMSKS motif; other site 977880007532 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 977880007533 tRNA binding surface [nucleotide binding]; other site 977880007534 anticodon binding site; other site 977880007535 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 977880007536 putative tRNA-binding site [nucleotide binding]; other site 977880007537 dimer interface [polypeptide binding]; other site 977880007538 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 977880007539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 977880007540 Family of unknown function (DUF490); Region: DUF490; pfam04357 977880007541 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 977880007542 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 977880007543 Surface antigen; Region: Bac_surface_Ag; pfam01103 977880007544 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 977880007545 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 977880007546 pantoate--beta-alanine ligase; Region: panC; TIGR00018 977880007547 Pantoate-beta-alanine ligase; Region: PanC; cd00560 977880007548 active site 977880007549 ATP-binding site [chemical binding]; other site 977880007550 pantoate-binding site; other site 977880007551 HXXH motif; other site 977880007552 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 977880007553 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 977880007554 cobyric acid synthase; Provisional; Region: PRK00784 977880007555 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 977880007556 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 977880007557 catalytic triad [active] 977880007558 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 977880007559 homotrimer interface [polypeptide binding]; other site 977880007560 Walker A motif; other site 977880007561 GTP binding site [chemical binding]; other site 977880007562 Walker B motif; other site 977880007563 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 977880007564 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 977880007565 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 977880007566 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880007567 homodimer interface [polypeptide binding]; other site 977880007568 catalytic residue [active] 977880007569 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 977880007570 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 977880007571 cobalamin binding residues [chemical binding]; other site 977880007572 putative BtuC binding residues; other site 977880007573 dimer interface [polypeptide binding]; other site 977880007574 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 977880007575 catalytic core [active] 977880007576 cobalamin synthase; Reviewed; Region: cobS; PRK00235 977880007577 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 977880007578 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 977880007579 active site pocket [active] 977880007580 putative dimer interface [polypeptide binding]; other site 977880007581 putative cataytic base [active] 977880007582 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 977880007583 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 977880007584 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 977880007585 homodimer interface [polypeptide binding]; other site 977880007586 Walker A motif; other site 977880007587 ATP binding site [chemical binding]; other site 977880007588 hydroxycobalamin binding site [chemical binding]; other site 977880007589 Walker B motif; other site 977880007590 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 977880007591 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 977880007592 Walker A/P-loop; other site 977880007593 ATP binding site [chemical binding]; other site 977880007594 Q-loop/lid; other site 977880007595 ABC transporter signature motif; other site 977880007596 Walker B; other site 977880007597 D-loop; other site 977880007598 H-loop/switch region; other site 977880007599 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 977880007600 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 977880007601 ABC-ATPase subunit interface; other site 977880007602 dimer interface [polypeptide binding]; other site 977880007603 putative PBP binding regions; other site 977880007604 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 977880007605 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 977880007606 N-terminal plug; other site 977880007607 ligand-binding site [chemical binding]; other site 977880007608 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 977880007609 Cell division protein ZapA; Region: ZapA; pfam05164 977880007610 Uncharacterized conserved protein [Function unknown]; Region: COG2947 977880007611 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 977880007612 Protein of unknown function (DUF541); Region: SIMPL; cl01077 977880007613 malonyl-CoA synthase; Validated; Region: PRK07514 977880007614 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 977880007615 acyl-activating enzyme (AAE) consensus motif; other site 977880007616 active site 977880007617 AMP binding site [chemical binding]; other site 977880007618 CoA binding site [chemical binding]; other site 977880007619 enoyl-CoA hydratase; Provisional; Region: PRK06127 977880007620 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 977880007621 substrate binding site [chemical binding]; other site 977880007622 oxyanion hole (OAH) forming residues; other site 977880007623 trimer interface [polypeptide binding]; other site 977880007624 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880007625 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 977880007626 Transcriptional regulators [Transcription]; Region: FadR; COG2186 977880007627 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880007628 DNA-binding site [nucleotide binding]; DNA binding site 977880007629 FCD domain; Region: FCD; pfam07729 977880007630 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 977880007631 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 977880007632 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 977880007633 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 977880007634 DNA polymerase III subunit chi; Validated; Region: PRK05728 977880007635 multifunctional aminopeptidase A; Provisional; Region: PRK00913 977880007636 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 977880007637 interface (dimer of trimers) [polypeptide binding]; other site 977880007638 Substrate-binding/catalytic site; other site 977880007639 Zn-binding sites [ion binding]; other site 977880007640 Predicted permeases [General function prediction only]; Region: COG0795 977880007641 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 977880007642 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 977880007643 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 977880007644 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 977880007645 putative active site [active] 977880007646 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 977880007647 active site 977880007648 SAM binding site [chemical binding]; other site 977880007649 homodimer interface [polypeptide binding]; other site 977880007650 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 977880007651 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 977880007652 CysD dimerization site [polypeptide binding]; other site 977880007653 G1 box; other site 977880007654 putative GEF interaction site [polypeptide binding]; other site 977880007655 GTP/Mg2+ binding site [chemical binding]; other site 977880007656 Switch I region; other site 977880007657 G2 box; other site 977880007658 G3 box; other site 977880007659 Switch II region; other site 977880007660 G4 box; other site 977880007661 G5 box; other site 977880007662 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 977880007663 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 977880007664 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 977880007665 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 977880007666 Active Sites [active] 977880007667 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 977880007668 Active Sites [active] 977880007669 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 977880007670 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 977880007671 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 977880007672 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 977880007673 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 977880007674 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 977880007675 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880007676 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 977880007677 substrate binding site [chemical binding]; other site 977880007678 dimerization interface [polypeptide binding]; other site 977880007679 Methyltransferase domain; Region: Methyltransf_31; pfam13847 977880007680 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 977880007681 S-adenosylmethionine binding site [chemical binding]; other site 977880007682 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 977880007683 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 977880007684 putative ligand binding site [chemical binding]; other site 977880007685 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 977880007686 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 977880007687 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 977880007688 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 977880007689 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 977880007690 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 977880007691 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 977880007692 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 977880007693 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 977880007694 TrkA-C domain; Region: TrkA_C; pfam02080 977880007695 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 977880007696 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 977880007697 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 977880007698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880007699 homodimer interface [polypeptide binding]; other site 977880007700 catalytic residue [active] 977880007701 N-formylglutamate amidohydrolase; Region: FGase; cl01522 977880007702 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 977880007703 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 977880007704 active site 977880007705 imidazolonepropionase; Validated; Region: PRK09356 977880007706 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 977880007707 active site 977880007708 HutD; Region: HutD; pfam05962 977880007709 urocanate hydratase; Provisional; Region: PRK05414 977880007710 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 977880007711 active sites [active] 977880007712 tetramer interface [polypeptide binding]; other site 977880007713 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 977880007714 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880007715 DNA-binding site [nucleotide binding]; DNA binding site 977880007716 UTRA domain; Region: UTRA; pfam07702 977880007717 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 977880007718 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 977880007719 Walker A/P-loop; other site 977880007720 ATP binding site [chemical binding]; other site 977880007721 Q-loop/lid; other site 977880007722 ABC transporter signature motif; other site 977880007723 Walker B; other site 977880007724 D-loop; other site 977880007725 H-loop/switch region; other site 977880007726 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 977880007727 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 977880007728 dimer interface [polypeptide binding]; other site 977880007729 conserved gate region; other site 977880007730 putative PBP binding loops; other site 977880007731 ABC-ATPase subunit interface; other site 977880007732 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 977880007733 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 977880007734 substrate binding pocket [chemical binding]; other site 977880007735 membrane-bound complex binding site; other site 977880007736 hinge residues; other site 977880007737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880007738 NAD(P) binding site [chemical binding]; other site 977880007739 active site 977880007740 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 977880007741 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 977880007742 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 977880007743 catalytic loop [active] 977880007744 iron binding site [ion binding]; other site 977880007745 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 977880007746 FAD binding pocket [chemical binding]; other site 977880007747 FAD binding motif [chemical binding]; other site 977880007748 phosphate binding motif [ion binding]; other site 977880007749 beta-alpha-beta structure motif; other site 977880007750 NAD binding pocket [chemical binding]; other site 977880007751 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 977880007752 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 977880007753 inhibitor-cofactor binding pocket; inhibition site 977880007754 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880007755 catalytic residue [active] 977880007756 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 977880007757 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 977880007758 Walker A/P-loop; other site 977880007759 ATP binding site [chemical binding]; other site 977880007760 Q-loop/lid; other site 977880007761 ABC transporter signature motif; other site 977880007762 Walker B; other site 977880007763 D-loop; other site 977880007764 H-loop/switch region; other site 977880007765 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 977880007766 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 977880007767 Walker A/P-loop; other site 977880007768 ATP binding site [chemical binding]; other site 977880007769 Q-loop/lid; other site 977880007770 ABC transporter signature motif; other site 977880007771 Walker B; other site 977880007772 D-loop; other site 977880007773 H-loop/switch region; other site 977880007774 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 977880007775 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 977880007776 TM-ABC transporter signature motif; other site 977880007777 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 977880007778 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 977880007779 TM-ABC transporter signature motif; other site 977880007780 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 977880007781 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 977880007782 dimerization interface [polypeptide binding]; other site 977880007783 ligand binding site [chemical binding]; other site 977880007784 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 977880007785 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 977880007786 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 977880007787 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 977880007788 hypothetical protein; Reviewed; Region: PRK00024 977880007789 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 977880007790 MPN+ (JAMM) motif; other site 977880007791 Zinc-binding site [ion binding]; other site 977880007792 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 977880007793 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 977880007794 L-aspartate oxidase; Provisional; Region: PRK09077 977880007795 L-aspartate oxidase; Provisional; Region: PRK06175 977880007796 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 977880007797 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 977880007798 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 977880007799 dimerization interface [polypeptide binding]; other site 977880007800 active site 977880007801 quinolinate synthetase; Provisional; Region: PRK09375 977880007802 Fatty acid desaturase; Region: FA_desaturase; pfam00487 977880007803 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 977880007804 Di-iron ligands [ion binding]; other site 977880007805 Transposase; Region: DDE_Tnp_ISL3; pfam01610 977880007806 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 977880007807 Mechanosensitive ion channel; Region: MS_channel; pfam00924 977880007808 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 977880007809 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 977880007810 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 977880007811 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 977880007812 active site 977880007813 substrate binding site [chemical binding]; other site 977880007814 cosubstrate binding site; other site 977880007815 catalytic site [active] 977880007816 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880007817 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 977880007818 active site 977880007819 phosphorylation site [posttranslational modification] 977880007820 intermolecular recognition site; other site 977880007821 dimerization interface [polypeptide binding]; other site 977880007822 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 977880007823 DNA binding residues [nucleotide binding] 977880007824 dimerization interface [polypeptide binding]; other site 977880007825 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880007826 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 977880007827 dimer interface [polypeptide binding]; other site 977880007828 phosphorylation site [posttranslational modification] 977880007829 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 977880007830 ATP binding site [chemical binding]; other site 977880007831 Mg2+ binding site [ion binding]; other site 977880007832 G-X-G motif; other site 977880007833 Response regulator receiver domain; Region: Response_reg; pfam00072 977880007834 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 977880007835 active site 977880007836 phosphorylation site [posttranslational modification] 977880007837 intermolecular recognition site; other site 977880007838 dimerization interface [polypeptide binding]; other site 977880007839 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 977880007840 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 977880007841 active site 977880007842 Riboflavin kinase; Region: Flavokinase; smart00904 977880007843 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 977880007844 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 977880007845 active site 977880007846 HIGH motif; other site 977880007847 nucleotide binding site [chemical binding]; other site 977880007848 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 977880007849 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 977880007850 active site 977880007851 KMSKS motif; other site 977880007852 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 977880007853 tRNA binding surface [nucleotide binding]; other site 977880007854 anticodon binding site; other site 977880007855 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 977880007856 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 977880007857 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 977880007858 Flavoprotein; Region: Flavoprotein; pfam02441 977880007859 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 977880007860 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 977880007861 trimer interface [polypeptide binding]; other site 977880007862 active site 977880007863 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 977880007864 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880007865 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 977880007866 Clp amino terminal domain; Region: Clp_N; pfam02861 977880007867 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 977880007868 Walker A motif; other site 977880007869 ATP binding site [chemical binding]; other site 977880007870 Walker B motif; other site 977880007871 arginine finger; other site 977880007872 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 977880007873 Walker A motif; other site 977880007874 ATP binding site [chemical binding]; other site 977880007875 Walker B motif; other site 977880007876 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 977880007877 Uncharacterized conserved protein [Function unknown]; Region: COG2127 977880007878 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 977880007879 DNA-binding site [nucleotide binding]; DNA binding site 977880007880 RNA-binding motif; other site 977880007881 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 977880007882 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880007883 isocitrate dehydrogenase; Validated; Region: PRK07362 977880007884 isocitrate dehydrogenase; Reviewed; Region: PRK07006 977880007885 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 977880007886 pseudouridine synthase; Region: TIGR00093 977880007887 active site 977880007888 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 977880007889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 977880007890 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 977880007891 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 977880007892 FAD binding domain; Region: FAD_binding_4; pfam01565 977880007893 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 977880007894 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 977880007895 ornithine carbamoyltransferase; Provisional; Region: PRK00779 977880007896 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 977880007897 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 977880007898 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 977880007899 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 977880007900 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 977880007901 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 977880007902 Uncharacterized conserved protein [Function unknown]; Region: COG2912 977880007903 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 977880007904 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 977880007905 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 977880007906 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 977880007907 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 977880007908 ATP binding site [chemical binding]; other site 977880007909 Mg2+ binding site [ion binding]; other site 977880007910 G-X-G motif; other site 977880007911 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 977880007912 ATP binding site [chemical binding]; other site 977880007913 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 977880007914 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 977880007915 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 977880007916 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 977880007917 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 977880007918 Transcriptional regulators [Transcription]; Region: FadR; COG2186 977880007919 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880007920 DNA-binding site [nucleotide binding]; DNA binding site 977880007921 FCD domain; Region: FCD; pfam07729 977880007922 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 977880007923 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 977880007924 Amidase; Region: Amidase; cl11426 977880007925 dihydropyrimidinase; Provisional; Region: PRK13404 977880007926 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 977880007927 tetramer interface [polypeptide binding]; other site 977880007928 active site 977880007929 metabolite-proton symporter; Region: 2A0106; TIGR00883 977880007930 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880007931 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 977880007932 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 977880007933 dimerization interface [polypeptide binding]; other site 977880007934 putative ATP binding site [chemical binding]; other site 977880007935 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 977880007936 Domain of unknown function DUF20; Region: UPF0118; pfam01594 977880007937 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 977880007938 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 977880007939 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 977880007940 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 977880007941 poly(A) polymerase; Region: pcnB; TIGR01942 977880007942 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 977880007943 active site 977880007944 NTP binding site [chemical binding]; other site 977880007945 metal binding triad [ion binding]; metal-binding site 977880007946 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 977880007947 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 977880007948 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 977880007949 catalytic center binding site [active] 977880007950 ATP binding site [chemical binding]; other site 977880007951 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 977880007952 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 977880007953 Substrate-binding site [chemical binding]; other site 977880007954 Substrate specificity [chemical binding]; other site 977880007955 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 977880007956 oligomerization interface [polypeptide binding]; other site 977880007957 active site 977880007958 metal binding site [ion binding]; metal-binding site 977880007959 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 977880007960 dimer interface [polypeptide binding]; other site 977880007961 conserved gate region; other site 977880007962 putative PBP binding loops; other site 977880007963 ABC-ATPase subunit interface; other site 977880007964 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880007965 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 977880007966 Walker A/P-loop; other site 977880007967 ATP binding site [chemical binding]; other site 977880007968 Q-loop/lid; other site 977880007969 ABC transporter signature motif; other site 977880007970 Walker B; other site 977880007971 D-loop; other site 977880007972 H-loop/switch region; other site 977880007973 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 977880007974 chorismate binding enzyme; Region: Chorismate_bind; cl10555 977880007975 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 977880007976 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 977880007977 substrate-cofactor binding pocket; other site 977880007978 chaperone protein DnaJ; Provisional; Region: PRK10767 977880007979 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 977880007980 HSP70 interaction site [polypeptide binding]; other site 977880007981 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 977880007982 substrate binding site [polypeptide binding]; other site 977880007983 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 977880007984 Zn binding sites [ion binding]; other site 977880007985 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 977880007986 dimer interface [polypeptide binding]; other site 977880007987 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 977880007988 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 977880007989 nucleotide binding site [chemical binding]; other site 977880007990 NEF interaction site [polypeptide binding]; other site 977880007991 SBD interface [polypeptide binding]; other site 977880007992 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 977880007993 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 977880007994 FAD binding domain; Region: FAD_binding_4; pfam01565 977880007995 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 977880007996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880007997 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 977880007998 dimerization interface [polypeptide binding]; other site 977880007999 substrate binding pocket [chemical binding]; other site 977880008000 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 977880008001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880008002 Coenzyme A binding pocket [chemical binding]; other site 977880008003 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 977880008004 FAD binding domain; Region: FAD_binding_4; pfam01565 977880008005 Ion transport protein; Region: Ion_trans; pfam00520 977880008006 Ion channel; Region: Ion_trans_2; pfam07885 977880008007 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 977880008008 Double zinc ribbon; Region: DZR; pfam12773 977880008009 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 977880008010 FAD binding domain; Region: FAD_binding_4; pfam01565 977880008011 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 977880008012 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 977880008013 Cysteine-rich domain; Region: CCG; pfam02754 977880008014 Cysteine-rich domain; Region: CCG; pfam02754 977880008015 LrgA family; Region: LrgA; pfam03788 977880008016 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 977880008017 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 977880008018 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880008019 Predicted transcriptional regulator [Transcription]; Region: COG2378 977880008020 HTH domain; Region: HTH_11; pfam08279 977880008021 WYL domain; Region: WYL; pfam13280 977880008022 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 977880008023 catalytic residues [active] 977880008024 dimer interface [polypeptide binding]; other site 977880008025 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 977880008026 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 977880008027 Walker A motif; other site 977880008028 ATP binding site [chemical binding]; other site 977880008029 Walker B motif; other site 977880008030 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 977880008031 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 977880008032 Walker A motif; other site 977880008033 ATP binding site [chemical binding]; other site 977880008034 Walker B motif; other site 977880008035 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 977880008036 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 977880008037 catalytic residue [active] 977880008038 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 977880008039 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 977880008040 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 977880008041 UbiA prenyltransferase family; Region: UbiA; pfam01040 977880008042 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 977880008043 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 977880008044 dimerization interface [polypeptide binding]; other site 977880008045 DPS ferroxidase diiron center [ion binding]; other site 977880008046 ion pore; other site 977880008047 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 977880008048 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 977880008049 tetramer interface [polypeptide binding]; other site 977880008050 heme binding pocket [chemical binding]; other site 977880008051 NADPH binding site [chemical binding]; other site 977880008052 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 977880008053 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880008054 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 977880008055 dimerization interface [polypeptide binding]; other site 977880008056 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 977880008057 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 977880008058 generic binding surface II; other site 977880008059 ssDNA binding site; other site 977880008060 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 977880008061 ATP binding site [chemical binding]; other site 977880008062 putative Mg++ binding site [ion binding]; other site 977880008063 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 977880008064 nucleotide binding region [chemical binding]; other site 977880008065 ATP-binding site [chemical binding]; other site 977880008066 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 977880008067 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 977880008068 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 977880008069 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 977880008070 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 977880008071 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 977880008072 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 977880008073 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 977880008074 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 977880008075 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 977880008076 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 977880008077 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 977880008078 Protein export membrane protein; Region: SecD_SecF; pfam02355 977880008079 Response regulator receiver domain; Region: Response_reg; pfam00072 977880008080 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 977880008081 active site 977880008082 phosphorylation site [posttranslational modification] 977880008083 intermolecular recognition site; other site 977880008084 dimerization interface [polypeptide binding]; other site 977880008085 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 977880008086 active site 977880008087 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880008088 phosphorylation site [posttranslational modification] 977880008089 intermolecular recognition site; other site 977880008090 dimerization interface [polypeptide binding]; other site 977880008091 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 977880008092 dimer interface [polypeptide binding]; other site 977880008093 phosphorylation site [posttranslational modification] 977880008094 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 977880008095 ATP binding site [chemical binding]; other site 977880008096 Mg2+ binding site [ion binding]; other site 977880008097 G-X-G motif; other site 977880008098 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 977880008099 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 977880008100 dimer interface [polypeptide binding]; other site 977880008101 phosphorylation site [posttranslational modification] 977880008102 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 977880008103 ATP binding site [chemical binding]; other site 977880008104 Mg2+ binding site [ion binding]; other site 977880008105 G-X-G motif; other site 977880008106 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 977880008107 S-adenosylmethionine binding site [chemical binding]; other site 977880008108 Uncharacterized conserved protein [Function unknown]; Region: COG2353 977880008109 YceI-like domain; Region: YceI; smart00867 977880008110 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 977880008111 adenylosuccinate lyase; Provisional; Region: PRK09285 977880008112 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 977880008113 tetramer interface [polypeptide binding]; other site 977880008114 active site 977880008115 putative glutathione S-transferase; Provisional; Region: PRK10357 977880008116 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 977880008117 putative C-terminal domain interface [polypeptide binding]; other site 977880008118 putative GSH binding site (G-site) [chemical binding]; other site 977880008119 putative dimer interface [polypeptide binding]; other site 977880008120 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 977880008121 dimer interface [polypeptide binding]; other site 977880008122 N-terminal domain interface [polypeptide binding]; other site 977880008123 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 977880008124 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 977880008125 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 977880008126 nudix motif; other site 977880008127 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 977880008128 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 977880008129 ligand binding site [chemical binding]; other site 977880008130 homodimer interface [polypeptide binding]; other site 977880008131 NAD(P) binding site [chemical binding]; other site 977880008132 trimer interface B [polypeptide binding]; other site 977880008133 trimer interface A [polypeptide binding]; other site 977880008134 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 977880008135 tetramerization interface [polypeptide binding]; other site 977880008136 active site 977880008137 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 977880008138 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 977880008139 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 977880008140 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 977880008141 active site 977880008142 phosphorylation site [posttranslational modification] 977880008143 intermolecular recognition site; other site 977880008144 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 977880008145 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 977880008146 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 977880008147 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 977880008148 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 977880008149 putative catalytic residue [active] 977880008150 Predicted membrane protein [Function unknown]; Region: COG1981 977880008151 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 977880008152 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 977880008153 putative catalytic cysteine [active] 977880008154 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 977880008155 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 977880008156 Lipopolysaccharide-assembly; Region: LptE; cl01125 977880008157 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 977880008158 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 977880008159 HIGH motif; other site 977880008160 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 977880008161 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 977880008162 active site 977880008163 KMSKS motif; other site 977880008164 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 977880008165 tRNA binding surface [nucleotide binding]; other site 977880008166 dihydrodipicolinate reductase; Provisional; Region: PRK00048 977880008167 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 977880008168 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 977880008169 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 977880008170 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 977880008171 ferric uptake regulator; Provisional; Region: fur; PRK09462 977880008172 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 977880008173 metal binding site 2 [ion binding]; metal-binding site 977880008174 putative DNA binding helix; other site 977880008175 metal binding site 1 [ion binding]; metal-binding site 977880008176 dimer interface [polypeptide binding]; other site 977880008177 structural Zn2+ binding site [ion binding]; other site 977880008178 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880008179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880008180 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 977880008181 dimerization interface [polypeptide binding]; other site 977880008182 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 977880008183 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 977880008184 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 977880008185 transketolase; Reviewed; Region: PRK12753 977880008186 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 977880008187 TPP-binding site [chemical binding]; other site 977880008188 dimer interface [polypeptide binding]; other site 977880008189 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 977880008190 PYR/PP interface [polypeptide binding]; other site 977880008191 dimer interface [polypeptide binding]; other site 977880008192 TPP binding site [chemical binding]; other site 977880008193 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 977880008194 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 977880008195 putative dimer interface [polypeptide binding]; other site 977880008196 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880008197 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 977880008198 RNA methyltransferase, RsmE family; Region: TIGR00046 977880008199 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 977880008200 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 977880008201 putative RNAase interaction site [polypeptide binding]; other site 977880008202 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 977880008203 active site 977880008204 barstar interaction site; other site 977880008205 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 977880008206 malic enzyme; Reviewed; Region: PRK12862 977880008207 Malic enzyme, N-terminal domain; Region: malic; pfam00390 977880008208 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 977880008209 putative NAD(P) binding site [chemical binding]; other site 977880008210 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 977880008211 thiamine monophosphate kinase; Provisional; Region: PRK05731 977880008212 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 977880008213 ATP binding site [chemical binding]; other site 977880008214 dimerization interface [polypeptide binding]; other site 977880008215 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 977880008216 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 977880008217 tetramer interfaces [polypeptide binding]; other site 977880008218 beta-alpha-beta structure motif; other site 977880008219 binuclear metal-binding site [ion binding]; other site 977880008220 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 977880008221 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 977880008222 active site 977880008223 dimer interface [polypeptide binding]; other site 977880008224 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 977880008225 EamA-like transporter family; Region: EamA; pfam00892 977880008226 EamA-like transporter family; Region: EamA; pfam00892 977880008227 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 977880008228 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 977880008229 Cl binding site [ion binding]; other site 977880008230 oligomer interface [polypeptide binding]; other site 977880008231 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 977880008232 Transglycosylase; Region: Transgly; cl17702 977880008233 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 977880008234 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 977880008235 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 977880008236 shikimate binding site; other site 977880008237 NAD(P) binding site [chemical binding]; other site 977880008238 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 977880008239 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 977880008240 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 977880008241 RNB domain; Region: RNB; pfam00773 977880008242 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 977880008243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880008244 NAD(P) binding site [chemical binding]; other site 977880008245 active site 977880008246 Chorismate lyase; Region: Chor_lyase; cl01230 977880008247 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 977880008248 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880008249 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 977880008250 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 977880008251 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 977880008252 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 977880008253 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 977880008254 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 977880008255 catalytic residues [active] 977880008256 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 977880008257 Dehydroquinase class II; Region: DHquinase_II; pfam01220 977880008258 trimer interface [polypeptide binding]; other site 977880008259 active site 977880008260 dimer interface [polypeptide binding]; other site 977880008261 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 977880008262 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 977880008263 carboxyltransferase (CT) interaction site; other site 977880008264 biotinylation site [posttranslational modification]; other site 977880008265 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 977880008266 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 977880008267 ATP-grasp domain; Region: ATP-grasp_4; cl17255 977880008268 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 977880008269 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 977880008270 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 977880008271 S-adenosylmethionine binding site [chemical binding]; other site 977880008272 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 977880008273 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 977880008274 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 977880008275 dimer interface [polypeptide binding]; other site 977880008276 catalytic triad [active] 977880008277 peroxidatic and resolving cysteines [active] 977880008278 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 977880008279 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 977880008280 substrate binding site [chemical binding]; other site 977880008281 ATP binding site [chemical binding]; other site 977880008282 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 977880008283 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 977880008284 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 977880008285 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 977880008286 N-terminal plug; other site 977880008287 ligand-binding site [chemical binding]; other site 977880008288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880008289 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880008290 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 977880008291 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 977880008292 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 977880008293 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 977880008294 active site 977880008295 catalytic tetrad [active] 977880008296 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 977880008297 recombination associated protein; Reviewed; Region: rdgC; PRK00321 977880008298 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 977880008299 active site 977880008300 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880008301 Peptidase M30; Region: Peptidase_M30; pfam10460 977880008302 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 977880008303 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 977880008304 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 977880008305 enoyl-CoA hydratase; Provisional; Region: PRK06144 977880008306 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 977880008307 substrate binding site [chemical binding]; other site 977880008308 oxyanion hole (OAH) forming residues; other site 977880008309 trimer interface [polypeptide binding]; other site 977880008310 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880008311 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880008312 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880008313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880008314 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880008315 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 977880008316 dimerization interface [polypeptide binding]; other site 977880008317 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 977880008318 PAAR motif; Region: PAAR_motif; pfam05488 977880008319 YCII-related domain; Region: YCII; cl00999 977880008320 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 977880008321 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 977880008322 Walker A/P-loop; other site 977880008323 ATP binding site [chemical binding]; other site 977880008324 Q-loop/lid; other site 977880008325 ABC transporter signature motif; other site 977880008326 Walker B; other site 977880008327 D-loop; other site 977880008328 H-loop/switch region; other site 977880008329 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 977880008330 Uncharacterized conserved protein [Function unknown]; Region: COG5476 977880008331 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 977880008332 MlrC C-terminus; Region: MlrC_C; pfam07171 977880008333 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 977880008334 DNA repair protein RadA; Provisional; Region: PRK11823 977880008335 SIR2-like domain; Region: SIR2_2; pfam13289 977880008336 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 977880008337 dimer interface [polypeptide binding]; other site 977880008338 putative radical transfer pathway; other site 977880008339 diiron center [ion binding]; other site 977880008340 tyrosyl radical; other site 977880008341 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 977880008342 ATP cone domain; Region: ATP-cone; pfam03477 977880008343 Class I ribonucleotide reductase; Region: RNR_I; cd01679 977880008344 active site 977880008345 dimer interface [polypeptide binding]; other site 977880008346 catalytic residues [active] 977880008347 effector binding site; other site 977880008348 R2 peptide binding site; other site 977880008349 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 977880008350 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 977880008351 amidase catalytic site [active] 977880008352 Zn binding residues [ion binding]; other site 977880008353 substrate binding site [chemical binding]; other site 977880008354 Response regulator receiver domain; Region: Response_reg; pfam00072 977880008355 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 977880008356 active site 977880008357 phosphorylation site [posttranslational modification] 977880008358 intermolecular recognition site; other site 977880008359 dimerization interface [polypeptide binding]; other site 977880008360 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 977880008361 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 977880008362 Walker A motif; other site 977880008363 ATP binding site [chemical binding]; other site 977880008364 Walker B motif; other site 977880008365 arginine finger; other site 977880008366 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880008367 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880008368 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 977880008369 dimer interface [polypeptide binding]; other site 977880008370 phosphorylation site [posttranslational modification] 977880008371 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 977880008372 ATP binding site [chemical binding]; other site 977880008373 Mg2+ binding site [ion binding]; other site 977880008374 G-X-G motif; other site 977880008375 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 977880008376 signal recognition particle protein; Provisional; Region: PRK10867 977880008377 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 977880008378 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 977880008379 P loop; other site 977880008380 GTP binding site [chemical binding]; other site 977880008381 Signal peptide binding domain; Region: SRP_SPB; pfam02978 977880008382 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 977880008383 active site 977880008384 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 977880008385 LysE type translocator; Region: LysE; cl00565 977880008386 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 977880008387 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880008388 Helix-turn-helix domain; Region: HTH_18; pfam12833 977880008389 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 977880008390 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 977880008391 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 977880008392 N-acetyl-D-glucosamine binding site [chemical binding]; other site 977880008393 catalytic residue [active] 977880008394 prolyl-tRNA synthetase; Provisional; Region: PRK09194 977880008395 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 977880008396 dimer interface [polypeptide binding]; other site 977880008397 motif 1; other site 977880008398 active site 977880008399 motif 2; other site 977880008400 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 977880008401 putative deacylase active site [active] 977880008402 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 977880008403 active site 977880008404 motif 3; other site 977880008405 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 977880008406 anticodon binding site; other site 977880008407 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 977880008408 putative active site [active] 977880008409 Ap4A binding site [chemical binding]; other site 977880008410 nudix motif; other site 977880008411 putative metal binding site [ion binding]; other site 977880008412 CNP1-like family; Region: CNP1; pfam08750 977880008413 gamma-glutamyl kinase; Provisional; Region: PRK05429 977880008414 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 977880008415 nucleotide binding site [chemical binding]; other site 977880008416 homotetrameric interface [polypeptide binding]; other site 977880008417 putative phosphate binding site [ion binding]; other site 977880008418 putative allosteric binding site; other site 977880008419 PUA domain; Region: PUA; pfam01472 977880008420 GTPase CgtA; Reviewed; Region: obgE; PRK12299 977880008421 GTP1/OBG; Region: GTP1_OBG; pfam01018 977880008422 Obg GTPase; Region: Obg; cd01898 977880008423 G1 box; other site 977880008424 GTP/Mg2+ binding site [chemical binding]; other site 977880008425 Switch I region; other site 977880008426 G2 box; other site 977880008427 G3 box; other site 977880008428 Switch II region; other site 977880008429 G4 box; other site 977880008430 G5 box; other site 977880008431 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 977880008432 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 977880008433 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 977880008434 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 977880008435 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 977880008436 substrate binding pocket [chemical binding]; other site 977880008437 chain length determination region; other site 977880008438 substrate-Mg2+ binding site; other site 977880008439 catalytic residues [active] 977880008440 aspartate-rich region 1; other site 977880008441 active site lid residues [active] 977880008442 aspartate-rich region 2; other site 977880008443 Helix-turn-helix domain; Region: HTH_17; pfam12728 977880008444 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 977880008445 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 977880008446 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 977880008447 Walker A motif; other site 977880008448 ATP binding site [chemical binding]; other site 977880008449 Walker B motif; other site 977880008450 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 977880008451 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 977880008452 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 977880008453 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 977880008454 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 977880008455 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 977880008456 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 977880008457 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 977880008458 CoA-binding site [chemical binding]; other site 977880008459 ATP-binding [chemical binding]; other site 977880008460 hypothetical protein; Provisional; Region: PRK05287 977880008461 Domain of unknown function (DUF329); Region: DUF329; pfam03884 977880008462 Predicted membrane protein [Function unknown]; Region: COG1297 977880008463 putative oligopeptide transporter, OPT family; Region: TIGR00733 977880008464 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 977880008465 active site 977880008466 8-oxo-dGMP binding site [chemical binding]; other site 977880008467 nudix motif; other site 977880008468 metal binding site [ion binding]; metal-binding site 977880008469 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 977880008470 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 977880008471 Walker A motif; other site 977880008472 ATP binding site [chemical binding]; other site 977880008473 Walker B motif; other site 977880008474 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 977880008475 heterotetramer interface [polypeptide binding]; other site 977880008476 active site pocket [active] 977880008477 cleavage site 977880008478 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 977880008479 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 977880008480 SEC-C motif; Region: SEC-C; pfam02810 977880008481 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 977880008482 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 977880008483 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 977880008484 catalytic triad [active] 977880008485 dimer interface [polypeptide binding]; other site 977880008486 cell division protein FtsZ; Validated; Region: PRK09330 977880008487 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 977880008488 nucleotide binding site [chemical binding]; other site 977880008489 SulA interaction site; other site 977880008490 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 977880008491 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 977880008492 nucleotide binding site [chemical binding]; other site 977880008493 Cell division protein FtsA; Region: FtsA; pfam14450 977880008494 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 977880008495 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 977880008496 Cell division protein FtsQ; Region: FtsQ; pfam03799 977880008497 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 977880008498 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 977880008499 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 977880008500 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 977880008501 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 977880008502 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 977880008503 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 977880008504 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 977880008505 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 977880008506 active site 977880008507 homodimer interface [polypeptide binding]; other site 977880008508 cell division protein FtsW; Region: ftsW; TIGR02614 977880008509 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 977880008510 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 977880008511 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 977880008512 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 977880008513 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 977880008514 Mg++ binding site [ion binding]; other site 977880008515 putative catalytic motif [active] 977880008516 putative substrate binding site [chemical binding]; other site 977880008517 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 977880008518 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 977880008519 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 977880008520 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 977880008521 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 977880008522 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 977880008523 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 977880008524 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 977880008525 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 977880008526 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 977880008527 Cell division protein FtsL; Region: FtsL; cl11433 977880008528 MraW methylase family; Region: Methyltransf_5; cl17771 977880008529 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 977880008530 cell division protein MraZ; Reviewed; Region: PRK00326 977880008531 MraZ protein; Region: MraZ; pfam02381 977880008532 MraZ protein; Region: MraZ; pfam02381 977880008533 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 977880008534 diiron binding motif [ion binding]; other site 977880008535 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880008536 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 977880008537 trimer interface [polypeptide binding]; other site 977880008538 eyelet of channel; other site 977880008539 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880008540 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880008541 MarR family; Region: MarR; pfam01047 977880008542 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 977880008543 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 977880008544 acyl-activating enzyme (AAE) consensus motif; other site 977880008545 putative AMP binding site [chemical binding]; other site 977880008546 putative active site [active] 977880008547 putative CoA binding site [chemical binding]; other site 977880008548 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880008549 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880008550 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 977880008551 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 977880008552 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 977880008553 putative [4Fe-4S] binding site [ion binding]; other site 977880008554 putative molybdopterin cofactor binding site [chemical binding]; other site 977880008555 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 977880008556 putative molybdopterin cofactor binding site; other site 977880008557 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 977880008558 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 977880008559 putative ligand binding site [chemical binding]; other site 977880008560 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 977880008561 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880008562 Walker A/P-loop; other site 977880008563 ATP binding site [chemical binding]; other site 977880008564 Q-loop/lid; other site 977880008565 ABC transporter signature motif; other site 977880008566 Walker B; other site 977880008567 D-loop; other site 977880008568 H-loop/switch region; other site 977880008569 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 977880008570 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 977880008571 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880008572 Walker A/P-loop; other site 977880008573 ATP binding site [chemical binding]; other site 977880008574 Q-loop/lid; other site 977880008575 ABC transporter signature motif; other site 977880008576 Walker B; other site 977880008577 D-loop; other site 977880008578 H-loop/switch region; other site 977880008579 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 977880008580 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 977880008581 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 977880008582 putative PBP binding loops; other site 977880008583 dimer interface [polypeptide binding]; other site 977880008584 ABC-ATPase subunit interface; other site 977880008585 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 977880008586 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 977880008587 dimer interface [polypeptide binding]; other site 977880008588 conserved gate region; other site 977880008589 putative PBP binding loops; other site 977880008590 ABC-ATPase subunit interface; other site 977880008591 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 977880008592 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_2; cd08498 977880008593 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 977880008594 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 977880008595 metal binding site [ion binding]; metal-binding site 977880008596 putative dimer interface [polypeptide binding]; other site 977880008597 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 977880008598 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 977880008599 enoyl-CoA hydratase; Provisional; Region: PRK05862 977880008600 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 977880008601 substrate binding site [chemical binding]; other site 977880008602 oxyanion hole (OAH) forming residues; other site 977880008603 trimer interface [polypeptide binding]; other site 977880008604 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 977880008605 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 977880008606 Walker A/P-loop; other site 977880008607 ATP binding site [chemical binding]; other site 977880008608 Q-loop/lid; other site 977880008609 ABC transporter signature motif; other site 977880008610 Walker B; other site 977880008611 D-loop; other site 977880008612 H-loop/switch region; other site 977880008613 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 977880008614 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 977880008615 dimer interface [polypeptide binding]; other site 977880008616 conserved gate region; other site 977880008617 putative PBP binding loops; other site 977880008618 ABC-ATPase subunit interface; other site 977880008619 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 977880008620 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 977880008621 substrate binding pocket [chemical binding]; other site 977880008622 membrane-bound complex binding site; other site 977880008623 hinge residues; other site 977880008624 enoyl-CoA hydratase; Provisional; Region: PRK08140 977880008625 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 977880008626 substrate binding site [chemical binding]; other site 977880008627 oxyanion hole (OAH) forming residues; other site 977880008628 trimer interface [polypeptide binding]; other site 977880008629 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 977880008630 CoenzymeA binding site [chemical binding]; other site 977880008631 subunit interaction site [polypeptide binding]; other site 977880008632 PHB binding site; other site 977880008633 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880008634 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 977880008635 acyl-activating enzyme (AAE) consensus motif; other site 977880008636 AMP binding site [chemical binding]; other site 977880008637 active site 977880008638 CoA binding site [chemical binding]; other site 977880008639 MltA specific insert domain; Region: MltA; smart00925 977880008640 3D domain; Region: 3D; pfam06725 977880008641 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 977880008642 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 977880008643 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 977880008644 substrate binding site [chemical binding]; other site 977880008645 hexamer interface [polypeptide binding]; other site 977880008646 metal binding site [ion binding]; metal-binding site 977880008647 phosphoglycolate phosphatase; Provisional; Region: PRK13222 977880008648 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 977880008649 motif II; other site 977880008650 anthranilate synthase component I; Provisional; Region: PRK13565 977880008651 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 977880008652 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 977880008653 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 977880008654 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 977880008655 glutamine binding [chemical binding]; other site 977880008656 catalytic triad [active] 977880008657 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 977880008658 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 977880008659 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 977880008660 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 977880008661 active site 977880008662 ribulose/triose binding site [chemical binding]; other site 977880008663 phosphate binding site [ion binding]; other site 977880008664 substrate (anthranilate) binding pocket [chemical binding]; other site 977880008665 product (indole) binding pocket [chemical binding]; other site 977880008666 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 977880008667 putative active site [active] 977880008668 putative triphosphate binding site [ion binding]; other site 977880008669 putative metal binding residues [ion binding]; other site 977880008670 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 977880008671 ligand binding site [chemical binding]; other site 977880008672 active site 977880008673 UGI interface [polypeptide binding]; other site 977880008674 catalytic site [active] 977880008675 acylphosphatase; Provisional; Region: PRK14430 977880008676 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 977880008677 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 977880008678 dimer interface [polypeptide binding]; other site 977880008679 conserved gate region; other site 977880008680 putative PBP binding loops; other site 977880008681 ABC-ATPase subunit interface; other site 977880008682 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 977880008683 dimer interface [polypeptide binding]; other site 977880008684 conserved gate region; other site 977880008685 putative PBP binding loops; other site 977880008686 ABC-ATPase subunit interface; other site 977880008687 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 977880008688 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 977880008689 Walker A/P-loop; other site 977880008690 ATP binding site [chemical binding]; other site 977880008691 Q-loop/lid; other site 977880008692 ABC transporter signature motif; other site 977880008693 Walker B; other site 977880008694 D-loop; other site 977880008695 H-loop/switch region; other site 977880008696 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 977880008697 Predicted membrane protein [Function unknown]; Region: COG1289 977880008698 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 977880008699 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 977880008700 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 977880008701 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 977880008702 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 977880008703 protein binding site [polypeptide binding]; other site 977880008704 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 977880008705 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 977880008706 NADP binding site [chemical binding]; other site 977880008707 dimer interface [polypeptide binding]; other site 977880008708 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 977880008709 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 977880008710 dimerization domain [polypeptide binding]; other site 977880008711 dimer interface [polypeptide binding]; other site 977880008712 catalytic residues [active] 977880008713 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 977880008714 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 977880008715 GTP-binding protein YchF; Reviewed; Region: PRK09601 977880008716 YchF GTPase; Region: YchF; cd01900 977880008717 G1 box; other site 977880008718 GTP/Mg2+ binding site [chemical binding]; other site 977880008719 Switch I region; other site 977880008720 G2 box; other site 977880008721 Switch II region; other site 977880008722 G3 box; other site 977880008723 G4 box; other site 977880008724 G5 box; other site 977880008725 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 977880008726 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 977880008727 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 977880008728 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 977880008729 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 977880008730 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 977880008731 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 977880008732 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 977880008733 tRNA; other site 977880008734 putative tRNA binding site [nucleotide binding]; other site 977880008735 putative NADP binding site [chemical binding]; other site 977880008736 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 977880008737 peptide chain release factor 1; Validated; Region: prfA; PRK00591 977880008738 This domain is found in peptide chain release factors; Region: PCRF; smart00937 977880008739 RF-1 domain; Region: RF-1; pfam00472 977880008740 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 977880008741 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 977880008742 S-adenosylmethionine binding site [chemical binding]; other site 977880008743 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 977880008744 putative GSH binding site [chemical binding]; other site 977880008745 catalytic residues [active] 977880008746 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 977880008747 Flavoprotein; Region: Flavoprotein; pfam02441 977880008748 aldehyde dehydrogenase family 7 member; Region: PLN02315 977880008749 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 977880008750 NAD(P) binding site [chemical binding]; other site 977880008751 catalytic residues [active] 977880008752 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 977880008753 TrkA-N domain; Region: TrkA_N; pfam02254 977880008754 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 977880008755 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 977880008756 AsnC family; Region: AsnC_trans_reg; pfam01037 977880008757 dihydrodipicolinate reductase; Provisional; Region: PRK00048 977880008758 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 977880008759 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 977880008760 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 977880008761 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 977880008762 putative ion selectivity filter; other site 977880008763 putative pore gating glutamate residue; other site 977880008764 putative H+/Cl- coupling transport residue; other site 977880008765 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880008766 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 977880008767 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880008768 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 977880008769 acyl-activating enzyme (AAE) consensus motif; other site 977880008770 putative AMP binding site [chemical binding]; other site 977880008771 putative active site [active] 977880008772 acyl-activating enzyme (AAE) consensus motif; other site 977880008773 putative CoA binding site [chemical binding]; other site 977880008774 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880008775 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880008776 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 977880008777 putative effector binding pocket; other site 977880008778 dimerization interface [polypeptide binding]; other site 977880008779 Predicted transcriptional regulators [Transcription]; Region: COG1733 977880008780 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 977880008781 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 977880008782 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 977880008783 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 977880008784 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 977880008785 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 977880008786 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880008787 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 977880008788 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 977880008789 putative active site [active] 977880008790 putative metal binding site [ion binding]; other site 977880008791 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 977880008792 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 977880008793 active site 977880008794 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 977880008795 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880008796 Walker A/P-loop; other site 977880008797 ATP binding site [chemical binding]; other site 977880008798 Q-loop/lid; other site 977880008799 ABC transporter signature motif; other site 977880008800 Walker B; other site 977880008801 D-loop; other site 977880008802 H-loop/switch region; other site 977880008803 ABC transporter; Region: ABC_tran_2; pfam12848 977880008804 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 977880008805 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 977880008806 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 977880008807 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 977880008808 active site 977880008809 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 977880008810 active site 977880008811 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 977880008812 xanthine permease; Region: pbuX; TIGR03173 977880008813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880008814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880008815 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 977880008816 putative dimerization interface [polypeptide binding]; other site 977880008817 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 977880008818 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 977880008819 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 977880008820 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 977880008821 catalytic loop [active] 977880008822 iron binding site [ion binding]; other site 977880008823 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 977880008824 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 977880008825 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 977880008826 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880008827 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 977880008828 Flavoprotein; Region: Flavoprotein; pfam02441 977880008829 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 977880008830 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 977880008831 P-loop, Walker A motif; other site 977880008832 Base recognition motif; other site 977880008833 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 977880008834 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880008835 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880008836 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880008837 xanthine permease; Region: pbuX; TIGR03173 977880008838 amidohydrolase; Provisional; Region: PRK12393 977880008839 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 977880008840 active site 977880008841 putative substrate binding pocket [chemical binding]; other site 977880008842 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 977880008843 DctM-like transporters; Region: DctM; pfam06808 977880008844 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 977880008845 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 977880008846 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 977880008847 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 977880008848 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 977880008849 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 977880008850 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 977880008851 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 977880008852 metal binding site [ion binding]; metal-binding site 977880008853 substrate binding pocket [chemical binding]; other site 977880008854 putative oxidoreductase; Provisional; Region: PRK10083 977880008855 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 977880008856 putative NAD(P) binding site [chemical binding]; other site 977880008857 catalytic Zn binding site [ion binding]; other site 977880008858 structural Zn binding site [ion binding]; other site 977880008859 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 977880008860 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 977880008861 substrate binding site [chemical binding]; other site 977880008862 ATP binding site [chemical binding]; other site 977880008863 2TM domain; Region: 2TM; pfam13239 977880008864 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 977880008865 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 977880008866 active site 977880008867 phosphorylation site [posttranslational modification] 977880008868 intermolecular recognition site; other site 977880008869 dimerization interface [polypeptide binding]; other site 977880008870 LytTr DNA-binding domain; Region: LytTR; smart00850 977880008871 2TM domain; Region: 2TM; pfam13239 977880008872 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 977880008873 Histidine kinase; Region: His_kinase; pfam06580 977880008874 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880008875 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880008876 enoyl-CoA hydratase; Provisional; Region: PRK06688 977880008877 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 977880008878 substrate binding site [chemical binding]; other site 977880008879 oxyanion hole (OAH) forming residues; other site 977880008880 trimer interface [polypeptide binding]; other site 977880008881 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 977880008882 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 977880008883 ATP-grasp domain; Region: ATP-grasp_4; cl17255 977880008884 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 977880008885 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 977880008886 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 977880008887 carboxyltransferase (CT) interaction site; other site 977880008888 biotinylation site [posttranslational modification]; other site 977880008889 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 977880008890 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 977880008891 isovaleryl-CoA dehydrogenase; Region: PLN02519 977880008892 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880008893 active site 977880008894 acyl-CoA synthetase; Validated; Region: PRK08316 977880008895 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880008896 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 977880008897 acyl-activating enzyme (AAE) consensus motif; other site 977880008898 acyl-activating enzyme (AAE) consensus motif; other site 977880008899 putative AMP binding site [chemical binding]; other site 977880008900 putative active site [active] 977880008901 putative CoA binding site [chemical binding]; other site 977880008902 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 977880008903 stringent starvation protein A; Provisional; Region: sspA; PRK09481 977880008904 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 977880008905 C-terminal domain interface [polypeptide binding]; other site 977880008906 putative GSH binding site (G-site) [chemical binding]; other site 977880008907 dimer interface [polypeptide binding]; other site 977880008908 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 977880008909 dimer interface [polypeptide binding]; other site 977880008910 N-terminal domain interface [polypeptide binding]; other site 977880008911 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 977880008912 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 977880008913 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 977880008914 Qi binding site; other site 977880008915 intrachain domain interface; other site 977880008916 interchain domain interface [polypeptide binding]; other site 977880008917 heme bH binding site [chemical binding]; other site 977880008918 heme bL binding site [chemical binding]; other site 977880008919 Qo binding site; other site 977880008920 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 977880008921 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 977880008922 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 977880008923 [2Fe-2S] cluster binding site [ion binding]; other site 977880008924 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 977880008925 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 977880008926 Uncharacterized conserved protein [Function unknown]; Region: COG0327 977880008927 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 977880008928 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 977880008929 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 977880008930 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 977880008931 protein binding site [polypeptide binding]; other site 977880008932 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880008933 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 977880008934 trimer interface [polypeptide binding]; other site 977880008935 eyelet of channel; other site 977880008936 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 977880008937 sec-independent translocase; Provisional; Region: tatB; PRK01919 977880008938 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 977880008939 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 977880008940 nucleotide binding site/active site [active] 977880008941 HIT family signature motif; other site 977880008942 catalytic residue [active] 977880008943 Predicted membrane protein [Function unknown]; Region: COG3671 977880008944 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 977880008945 metal binding site [ion binding]; metal-binding site 977880008946 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 977880008947 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 977880008948 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 977880008949 substrate binding site [chemical binding]; other site 977880008950 glutamase interaction surface [polypeptide binding]; other site 977880008951 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 977880008952 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 977880008953 catalytic residues [active] 977880008954 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 977880008955 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 977880008956 putative active site [active] 977880008957 oxyanion strand; other site 977880008958 catalytic triad [active] 977880008959 MarC family integral membrane protein; Region: MarC; cl00919 977880008960 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 977880008961 putative active site pocket [active] 977880008962 4-fold oligomerization interface [polypeptide binding]; other site 977880008963 metal binding residues [ion binding]; metal-binding site 977880008964 3-fold/trimer interface [polypeptide binding]; other site 977880008965 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 977880008966 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 977880008967 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880008968 homodimer interface [polypeptide binding]; other site 977880008969 catalytic residue [active] 977880008970 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 977880008971 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 977880008972 NAD binding site [chemical binding]; other site 977880008973 dimerization interface [polypeptide binding]; other site 977880008974 product binding site; other site 977880008975 substrate binding site [chemical binding]; other site 977880008976 zinc binding site [ion binding]; other site 977880008977 catalytic residues [active] 977880008978 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 977880008979 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 977880008980 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 977880008981 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 977880008982 hinge; other site 977880008983 active site 977880008984 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 977880008985 ABC-2 type transporter; Region: ABC2_membrane; cl17235 977880008986 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 977880008987 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 977880008988 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 977880008989 Walker A/P-loop; other site 977880008990 ATP binding site [chemical binding]; other site 977880008991 Q-loop/lid; other site 977880008992 ABC transporter signature motif; other site 977880008993 Walker B; other site 977880008994 D-loop; other site 977880008995 H-loop/switch region; other site 977880008996 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 977880008997 anti sigma factor interaction site; other site 977880008998 regulatory phosphorylation site [posttranslational modification]; other site 977880008999 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 977880009000 VacJ like lipoprotein; Region: VacJ; cl01073 977880009001 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 977880009002 mce related protein; Region: MCE; pfam02470 977880009003 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 977880009004 Permease; Region: Permease; pfam02405 977880009005 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 977880009006 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 977880009007 Walker A/P-loop; other site 977880009008 ATP binding site [chemical binding]; other site 977880009009 Q-loop/lid; other site 977880009010 ABC transporter signature motif; other site 977880009011 Walker B; other site 977880009012 D-loop; other site 977880009013 H-loop/switch region; other site 977880009014 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880009015 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 977880009016 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880009017 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880009018 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 977880009019 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 977880009020 active site 977880009021 dimer interface [polypeptide binding]; other site 977880009022 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 977880009023 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 977880009024 active site 977880009025 FMN binding site [chemical binding]; other site 977880009026 substrate binding site [chemical binding]; other site 977880009027 3Fe-4S cluster binding site [ion binding]; other site 977880009028 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 977880009029 domain interface; other site 977880009030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 977880009031 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 977880009032 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 977880009033 Zn2+ binding site [ion binding]; other site 977880009034 Mg2+ binding site [ion binding]; other site 977880009035 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 977880009036 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 977880009037 active site 977880009038 dimer interface [polypeptide binding]; other site 977880009039 metal binding site [ion binding]; metal-binding site 977880009040 shikimate kinase; Reviewed; Region: aroK; PRK00131 977880009041 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 977880009042 ADP binding site [chemical binding]; other site 977880009043 magnesium binding site [ion binding]; other site 977880009044 putative shikimate binding site; other site 977880009045 AMIN domain; Region: AMIN; pfam11741 977880009046 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 977880009047 Secretin and TonB N terminus short domain; Region: STN; smart00965 977880009048 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 977880009049 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 977880009050 Pilus assembly protein, PilP; Region: PilP; pfam04351 977880009051 Pilus assembly protein, PilO; Region: PilO; cl01234 977880009052 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 977880009053 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 977880009054 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 977880009055 Cell division protein FtsA; Region: FtsA; cl17206 977880009056 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 977880009057 Transglycosylase; Region: Transgly; pfam00912 977880009058 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 977880009059 frataxin-like protein; Provisional; Region: cyaY; PRK00446 977880009060 putative iron binding site [ion binding]; other site 977880009061 diaminopimelate decarboxylase; Region: lysA; TIGR01048 977880009062 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 977880009063 active site 977880009064 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 977880009065 substrate binding site [chemical binding]; other site 977880009066 catalytic residues [active] 977880009067 dimer interface [polypeptide binding]; other site 977880009068 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 977880009069 TMAO/DMSO reductase; Reviewed; Region: PRK05363 977880009070 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 977880009071 Moco binding site; other site 977880009072 metal coordination site [ion binding]; other site 977880009073 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 977880009074 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 977880009075 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 977880009076 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 977880009077 DNA binding residues [nucleotide binding] 977880009078 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 977880009079 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 977880009080 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 977880009081 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 977880009082 ResB-like family; Region: ResB; pfam05140 977880009083 Cytochrome c; Region: Cytochrom_C; cl11414 977880009084 Cytochrome c; Region: Cytochrom_C; cl11414 977880009085 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 977880009086 G1 box; other site 977880009087 GTP/Mg2+ binding site [chemical binding]; other site 977880009088 Switch I region; other site 977880009089 G2 box; other site 977880009090 G3 box; other site 977880009091 Switch II region; other site 977880009092 G4 box; other site 977880009093 G5 box; other site 977880009094 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 977880009095 dimer interface [polypeptide binding]; other site 977880009096 active site 977880009097 aspartate-rich active site metal binding site; other site 977880009098 allosteric magnesium binding site [ion binding]; other site 977880009099 Schiff base residues; other site 977880009100 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 977880009101 oligomer interface [polypeptide binding]; other site 977880009102 metal binding site [ion binding]; metal-binding site 977880009103 metal binding site [ion binding]; metal-binding site 977880009104 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 977880009105 putative Cl binding site [ion binding]; other site 977880009106 aspartate ring; other site 977880009107 hydrophobic gate; other site 977880009108 periplasmic entrance; other site 977880009109 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 977880009110 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 977880009111 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 977880009112 DsbD alpha interface [polypeptide binding]; other site 977880009113 catalytic residues [active] 977880009114 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 977880009115 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 977880009116 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 977880009117 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 977880009118 alphaNTD homodimer interface [polypeptide binding]; other site 977880009119 alphaNTD - beta interaction site [polypeptide binding]; other site 977880009120 alphaNTD - beta' interaction site [polypeptide binding]; other site 977880009121 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 977880009122 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 977880009123 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 977880009124 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 977880009125 RNA binding surface [nucleotide binding]; other site 977880009126 30S ribosomal protein S11; Validated; Region: PRK05309 977880009127 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 977880009128 30S ribosomal protein S13; Region: bact_S13; TIGR03631 977880009129 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 977880009130 rRNA binding site [nucleotide binding]; other site 977880009131 predicted 30S ribosome binding site; other site 977880009132 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 977880009133 SecY translocase; Region: SecY; pfam00344 977880009134 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 977880009135 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 977880009136 23S rRNA binding site [nucleotide binding]; other site 977880009137 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 977880009138 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 977880009139 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 977880009140 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 977880009141 5S rRNA interface [nucleotide binding]; other site 977880009142 23S rRNA interface [nucleotide binding]; other site 977880009143 L5 interface [polypeptide binding]; other site 977880009144 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 977880009145 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 977880009146 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 977880009147 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 977880009148 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 977880009149 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 977880009150 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 977880009151 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 977880009152 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 977880009153 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 977880009154 RNA binding site [nucleotide binding]; other site 977880009155 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 977880009156 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 977880009157 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 977880009158 23S rRNA interface [nucleotide binding]; other site 977880009159 putative translocon interaction site; other site 977880009160 signal recognition particle (SRP54) interaction site; other site 977880009161 L23 interface [polypeptide binding]; other site 977880009162 trigger factor interaction site; other site 977880009163 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 977880009164 23S rRNA interface [nucleotide binding]; other site 977880009165 5S rRNA interface [nucleotide binding]; other site 977880009166 putative antibiotic binding site [chemical binding]; other site 977880009167 L25 interface [polypeptide binding]; other site 977880009168 L27 interface [polypeptide binding]; other site 977880009169 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 977880009170 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 977880009171 G-X-X-G motif; other site 977880009172 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 977880009173 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 977880009174 putative translocon binding site; other site 977880009175 protein-rRNA interface [nucleotide binding]; other site 977880009176 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 977880009177 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 977880009178 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 977880009179 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 977880009180 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 977880009181 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 977880009182 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 977880009183 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 977880009184 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 977880009185 short chain dehydrogenase; Provisional; Region: PRK08265 977880009186 classical (c) SDRs; Region: SDR_c; cd05233 977880009187 NAD(P) binding site [chemical binding]; other site 977880009188 active site 977880009189 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 977880009190 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 977880009191 SnoaL-like domain; Region: SnoaL_2; pfam12680 977880009192 Helix-turn-helix domain; Region: HTH_18; pfam12833 977880009193 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 977880009194 elongation factor Tu; Reviewed; Region: PRK00049 977880009195 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 977880009196 G1 box; other site 977880009197 GEF interaction site [polypeptide binding]; other site 977880009198 GTP/Mg2+ binding site [chemical binding]; other site 977880009199 Switch I region; other site 977880009200 G2 box; other site 977880009201 G3 box; other site 977880009202 Switch II region; other site 977880009203 G4 box; other site 977880009204 G5 box; other site 977880009205 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 977880009206 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 977880009207 Antibiotic Binding Site [chemical binding]; other site 977880009208 elongation factor G; Reviewed; Region: PRK00007 977880009209 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 977880009210 G1 box; other site 977880009211 putative GEF interaction site [polypeptide binding]; other site 977880009212 GTP/Mg2+ binding site [chemical binding]; other site 977880009213 Switch I region; other site 977880009214 G2 box; other site 977880009215 G3 box; other site 977880009216 Switch II region; other site 977880009217 G4 box; other site 977880009218 G5 box; other site 977880009219 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 977880009220 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 977880009221 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 977880009222 30S ribosomal protein S7; Validated; Region: PRK05302 977880009223 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 977880009224 S17 interaction site [polypeptide binding]; other site 977880009225 S8 interaction site; other site 977880009226 16S rRNA interaction site [nucleotide binding]; other site 977880009227 streptomycin interaction site [chemical binding]; other site 977880009228 23S rRNA interaction site [nucleotide binding]; other site 977880009229 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 977880009230 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 977880009231 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 977880009232 ATP binding site [chemical binding]; other site 977880009233 putative Mg++ binding site [ion binding]; other site 977880009234 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 977880009235 nucleotide binding region [chemical binding]; other site 977880009236 ATP-binding site [chemical binding]; other site 977880009237 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 977880009238 HRDC domain; Region: HRDC; pfam00570 977880009239 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 977880009240 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 977880009241 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 977880009242 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 977880009243 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 977880009244 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 977880009245 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 977880009246 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 977880009247 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 977880009248 DNA binding site [nucleotide binding] 977880009249 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 977880009250 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 977880009251 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 977880009252 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 977880009253 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 977880009254 RPB11 interaction site [polypeptide binding]; other site 977880009255 RPB12 interaction site [polypeptide binding]; other site 977880009256 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 977880009257 RPB3 interaction site [polypeptide binding]; other site 977880009258 RPB1 interaction site [polypeptide binding]; other site 977880009259 RPB11 interaction site [polypeptide binding]; other site 977880009260 RPB10 interaction site [polypeptide binding]; other site 977880009261 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 977880009262 core dimer interface [polypeptide binding]; other site 977880009263 peripheral dimer interface [polypeptide binding]; other site 977880009264 L10 interface [polypeptide binding]; other site 977880009265 L11 interface [polypeptide binding]; other site 977880009266 putative EF-Tu interaction site [polypeptide binding]; other site 977880009267 putative EF-G interaction site [polypeptide binding]; other site 977880009268 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 977880009269 23S rRNA interface [nucleotide binding]; other site 977880009270 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 977880009271 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 977880009272 mRNA/rRNA interface [nucleotide binding]; other site 977880009273 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 977880009274 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 977880009275 23S rRNA interface [nucleotide binding]; other site 977880009276 L7/L12 interface [polypeptide binding]; other site 977880009277 putative thiostrepton binding site; other site 977880009278 L25 interface [polypeptide binding]; other site 977880009279 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 977880009280 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 977880009281 putative homodimer interface [polypeptide binding]; other site 977880009282 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 977880009283 heterodimer interface [polypeptide binding]; other site 977880009284 homodimer interface [polypeptide binding]; other site 977880009285 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 977880009286 elongation factor Tu; Reviewed; Region: PRK00049 977880009287 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 977880009288 G1 box; other site 977880009289 GEF interaction site [polypeptide binding]; other site 977880009290 GTP/Mg2+ binding site [chemical binding]; other site 977880009291 Switch I region; other site 977880009292 G2 box; other site 977880009293 G3 box; other site 977880009294 Switch II region; other site 977880009295 G4 box; other site 977880009296 G5 box; other site 977880009297 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 977880009298 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 977880009299 Antibiotic Binding Site [chemical binding]; other site 977880009300 Protein of unknown function, DUF488; Region: DUF488; cl01246 977880009301 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 977880009302 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 977880009303 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 977880009304 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 977880009305 Ligand Binding Site [chemical binding]; other site 977880009306 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 977880009307 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 977880009308 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 977880009309 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 977880009310 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 977880009311 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 977880009312 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 977880009313 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 977880009314 FAD binding pocket [chemical binding]; other site 977880009315 FAD binding motif [chemical binding]; other site 977880009316 phosphate binding motif [ion binding]; other site 977880009317 beta-alpha-beta structure motif; other site 977880009318 NAD(p) ribose binding residues [chemical binding]; other site 977880009319 NAD binding pocket [chemical binding]; other site 977880009320 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 977880009321 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 977880009322 catalytic loop [active] 977880009323 iron binding site [ion binding]; other site 977880009324 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 977880009325 Protein of unknown function; Region: DUF3658; pfam12395 977880009326 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880009327 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880009328 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 977880009329 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 977880009330 TrkA-N domain; Region: TrkA_N; pfam02254 977880009331 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 977880009332 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 977880009333 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 977880009334 putative DNA binding site [nucleotide binding]; other site 977880009335 putative Zn2+ binding site [ion binding]; other site 977880009336 AsnC family; Region: AsnC_trans_reg; pfam01037 977880009337 EF-hand domain pair; Region: EF_hand_5; pfam13499 977880009338 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 977880009339 Ca2+ binding site [ion binding]; other site 977880009340 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 977880009341 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 977880009342 heme-binding site [chemical binding]; other site 977880009343 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 977880009344 FAD binding pocket [chemical binding]; other site 977880009345 FAD binding motif [chemical binding]; other site 977880009346 phosphate binding motif [ion binding]; other site 977880009347 beta-alpha-beta structure motif; other site 977880009348 NAD binding pocket [chemical binding]; other site 977880009349 Heme binding pocket [chemical binding]; other site 977880009350 Predicted transcriptional regulator [Transcription]; Region: COG1959 977880009351 Transcriptional regulator; Region: Rrf2; cl17282 977880009352 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 977880009353 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 977880009354 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 977880009355 Type II transport protein GspH; Region: GspH; pfam12019 977880009356 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 977880009357 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 977880009358 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 977880009359 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 977880009360 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 977880009361 GspL periplasmic domain; Region: GspL_C; cl14909 977880009362 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 977880009363 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 977880009364 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 977880009365 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 977880009366 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 977880009367 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 977880009368 type II secretion system protein E; Region: type_II_gspE; TIGR02533 977880009369 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 977880009370 Walker A motif; other site 977880009371 ATP binding site [chemical binding]; other site 977880009372 Walker B motif; other site 977880009373 type II secretion system protein F; Region: GspF; TIGR02120 977880009374 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 977880009375 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 977880009376 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 977880009377 putative metal binding site [ion binding]; other site 977880009378 Uncharacterized conserved protein [Function unknown]; Region: COG1432 977880009379 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 977880009380 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 977880009381 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 977880009382 dimer interface [polypeptide binding]; other site 977880009383 PYR/PP interface [polypeptide binding]; other site 977880009384 TPP binding site [chemical binding]; other site 977880009385 substrate binding site [chemical binding]; other site 977880009386 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 977880009387 TPP-binding site; other site 977880009388 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 977880009389 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 977880009390 Uncharacterized conserved protein [Function unknown]; Region: COG3791 977880009391 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 977880009392 dimer interface [polypeptide binding]; other site 977880009393 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880009394 metal binding site [ion binding]; metal-binding site 977880009395 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880009396 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880009397 putative substrate translocation pore; other site 977880009398 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 977880009399 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 977880009400 putative active site [active] 977880009401 metal binding site [ion binding]; metal-binding site 977880009402 metabolite-proton symporter; Region: 2A0106; TIGR00883 977880009403 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880009404 putative substrate translocation pore; other site 977880009405 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 977880009406 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 977880009407 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 977880009408 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 977880009409 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 977880009410 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 977880009411 active site 977880009412 metal binding site [ion binding]; metal-binding site 977880009413 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 977880009414 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 977880009415 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 977880009416 catalytic residues [active] 977880009417 Cytochrome c [Energy production and conversion]; Region: COG3258 977880009418 Uncharacterized conserved protein [Function unknown]; Region: COG1416 977880009419 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 977880009420 Predicted secreted protein [Function unknown]; Region: COG5501 977880009421 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 977880009422 Cytochrome c; Region: Cytochrom_C; cl11414 977880009423 Cytochrome c; Region: Cytochrom_C; pfam00034 977880009424 Cytochrome c; Region: Cytochrom_C; cl11414 977880009425 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 977880009426 Moco binding site; other site 977880009427 metal coordination site [ion binding]; other site 977880009428 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 977880009429 dimerization interface [polypeptide binding]; other site 977880009430 putative DNA binding site [nucleotide binding]; other site 977880009431 putative Zn2+ binding site [ion binding]; other site 977880009432 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 977880009433 EamA-like transporter family; Region: EamA; pfam00892 977880009434 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 977880009435 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 977880009436 Cytochrome c; Region: Cytochrom_C; cl11414 977880009437 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 977880009438 BON domain; Region: BON; pfam04972 977880009439 BON domain; Region: BON; pfam04972 977880009440 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 977880009441 dimer interface [polypeptide binding]; other site 977880009442 active site 977880009443 hypothetical protein; Provisional; Region: PRK14673 977880009444 Predicted methyltransferases [General function prediction only]; Region: COG0313 977880009445 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 977880009446 putative SAM binding site [chemical binding]; other site 977880009447 putative homodimer interface [polypeptide binding]; other site 977880009448 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 977880009449 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 977880009450 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 977880009451 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 977880009452 active site 977880009453 catalytic site [active] 977880009454 substrate binding site [chemical binding]; other site 977880009455 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 977880009456 ArsC family; Region: ArsC; pfam03960 977880009457 catalytic residues [active] 977880009458 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 977880009459 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 977880009460 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 977880009461 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 977880009462 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 977880009463 putative metal binding site [ion binding]; other site 977880009464 allantoate amidohydrolase; Reviewed; Region: PRK12890 977880009465 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 977880009466 active site 977880009467 metal binding site [ion binding]; metal-binding site 977880009468 dimer interface [polypeptide binding]; other site 977880009469 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 977880009470 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 977880009471 Transcriptional regulators [Transcription]; Region: GntR; COG1802 977880009472 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880009473 DNA-binding site [nucleotide binding]; DNA binding site 977880009474 FCD domain; Region: FCD; pfam07729 977880009475 short chain dehydrogenase; Provisional; Region: PRK07576 977880009476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880009477 NAD(P) binding site [chemical binding]; other site 977880009478 active site 977880009479 enoyl-CoA hydratase; Provisional; Region: PRK08140 977880009480 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 977880009481 substrate binding site [chemical binding]; other site 977880009482 oxyanion hole (OAH) forming residues; other site 977880009483 trimer interface [polypeptide binding]; other site 977880009484 enoyl-CoA hydratase; Provisional; Region: PRK07509 977880009485 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 977880009486 substrate binding site [chemical binding]; other site 977880009487 oxyanion hole (OAH) forming residues; other site 977880009488 trimer interface [polypeptide binding]; other site 977880009489 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 977880009490 transcriptional activator TtdR; Provisional; Region: PRK09801 977880009491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880009492 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 977880009493 putative effector binding pocket; other site 977880009494 dimerization interface [polypeptide binding]; other site 977880009495 glyoxylate carboligase; Provisional; Region: PRK11269 977880009496 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 977880009497 PYR/PP interface [polypeptide binding]; other site 977880009498 dimer interface [polypeptide binding]; other site 977880009499 TPP binding site [chemical binding]; other site 977880009500 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 977880009501 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 977880009502 TPP-binding site [chemical binding]; other site 977880009503 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 977880009504 tartronate semialdehyde reductase; Provisional; Region: PRK15059 977880009505 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 977880009506 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 977880009507 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 977880009508 MOFRL family; Region: MOFRL; pfam05161 977880009509 pyruvate kinase; Provisional; Region: PRK06247 977880009510 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 977880009511 domain interfaces; other site 977880009512 active site 977880009513 Predicted metalloprotease [General function prediction only]; Region: COG2321 977880009514 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 977880009515 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 977880009516 Protein export membrane protein; Region: SecD_SecF; cl14618 977880009517 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 977880009518 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 977880009519 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 977880009520 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 977880009521 DNA binding residues [nucleotide binding] 977880009522 dimer interface [polypeptide binding]; other site 977880009523 putative metal binding site [ion binding]; other site 977880009524 heat shock protein HtpX; Provisional; Region: PRK05457 977880009525 hypothetical protein; Provisional; Region: PRK09256 977880009526 MltA-interacting protein MipA; Region: MipA; cl01504 977880009527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 977880009528 Protein of unknown function (DUF497); Region: DUF497; pfam04365 977880009529 Cytochrome c; Region: Cytochrom_C; cl11414 977880009530 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 977880009531 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 977880009532 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 977880009533 FeS/SAM binding site; other site 977880009534 HemN C-terminal domain; Region: HemN_C; pfam06969 977880009535 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 977880009536 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 977880009537 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 977880009538 Part of AAA domain; Region: AAA_19; pfam13245 977880009539 Family description; Region: UvrD_C_2; pfam13538 977880009540 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 977880009541 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 977880009542 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 977880009543 lipoyl attachment site [posttranslational modification]; other site 977880009544 glycine dehydrogenase; Provisional; Region: PRK05367 977880009545 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 977880009546 tetramer interface [polypeptide binding]; other site 977880009547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880009548 catalytic residue [active] 977880009549 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 977880009550 tetramer interface [polypeptide binding]; other site 977880009551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880009552 catalytic residue [active] 977880009553 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 977880009554 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 977880009555 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 977880009556 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 977880009557 OsmC-like protein; Region: OsmC; cl00767 977880009558 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 977880009559 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 977880009560 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 977880009561 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 977880009562 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 977880009563 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 977880009564 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 977880009565 binding surface 977880009566 TPR motif; other site 977880009567 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 977880009568 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 977880009569 dimerization interface [polypeptide binding]; other site 977880009570 ligand binding site [chemical binding]; other site 977880009571 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 977880009572 Predicted transcriptional regulator [Transcription]; Region: COG3905 977880009573 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 977880009574 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 977880009575 Glutamate binding site [chemical binding]; other site 977880009576 NAD binding site [chemical binding]; other site 977880009577 catalytic residues [active] 977880009578 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 977880009579 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 977880009580 ATP binding site [chemical binding]; other site 977880009581 putative Mg++ binding site [ion binding]; other site 977880009582 helicase superfamily c-terminal domain; Region: HELICc; smart00490 977880009583 ATP-binding site [chemical binding]; other site 977880009584 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 977880009585 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 977880009586 substrate binding site [chemical binding]; other site 977880009587 active site 977880009588 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 977880009589 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 977880009590 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 977880009591 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 977880009592 gamma subunit interface [polypeptide binding]; other site 977880009593 epsilon subunit interface [polypeptide binding]; other site 977880009594 LBP interface [polypeptide binding]; other site 977880009595 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 977880009596 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 977880009597 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 977880009598 alpha subunit interaction interface [polypeptide binding]; other site 977880009599 Walker A motif; other site 977880009600 ATP binding site [chemical binding]; other site 977880009601 Walker B motif; other site 977880009602 inhibitor binding site; inhibition site 977880009603 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 977880009604 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 977880009605 core domain interface [polypeptide binding]; other site 977880009606 delta subunit interface [polypeptide binding]; other site 977880009607 epsilon subunit interface [polypeptide binding]; other site 977880009608 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 977880009609 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 977880009610 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 977880009611 beta subunit interaction interface [polypeptide binding]; other site 977880009612 Walker A motif; other site 977880009613 ATP binding site [chemical binding]; other site 977880009614 Walker B motif; other site 977880009615 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 977880009616 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 977880009617 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 977880009618 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 977880009619 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 977880009620 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 977880009621 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 977880009622 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 977880009623 ATP synthase I chain; Region: ATP_synt_I; cl09170 977880009624 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 977880009625 ParB-like nuclease domain; Region: ParB; smart00470 977880009626 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 977880009627 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 977880009628 P-loop; other site 977880009629 Magnesium ion binding site [ion binding]; other site 977880009630 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 977880009631 Magnesium ion binding site [ion binding]; other site 977880009632 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 977880009633 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 977880009634 S-adenosylmethionine binding site [chemical binding]; other site 977880009635 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 977880009636 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 977880009637 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 977880009638 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 977880009639 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880009640 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 977880009641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880009642 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 977880009643 dimerization interface [polypeptide binding]; other site 977880009644 substrate binding pocket [chemical binding]; other site 977880009645 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 977880009646 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 977880009647 Walker A/P-loop; other site 977880009648 ATP binding site [chemical binding]; other site 977880009649 Q-loop/lid; other site 977880009650 ABC transporter signature motif; other site 977880009651 Walker B; other site 977880009652 D-loop; other site 977880009653 H-loop/switch region; other site 977880009654 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 977880009655 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 977880009656 TM-ABC transporter signature motif; other site 977880009657 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 977880009658 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 977880009659 Walker A/P-loop; other site 977880009660 ATP binding site [chemical binding]; other site 977880009661 Q-loop/lid; other site 977880009662 ABC transporter signature motif; other site 977880009663 Walker B; other site 977880009664 D-loop; other site 977880009665 H-loop/switch region; other site 977880009666 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 977880009667 TM-ABC transporter signature motif; other site 977880009668 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 977880009669 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 977880009670 putative ligand binding site [chemical binding]; other site 977880009671 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 977880009672 hypothetical protein; Provisional; Region: PRK10621 977880009673 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 977880009674 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 977880009675 TM-ABC transporter signature motif; other site 977880009676 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 977880009677 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 977880009678 TM-ABC transporter signature motif; other site 977880009679 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 977880009680 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 977880009681 putative ligand binding site [chemical binding]; other site 977880009682 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 977880009683 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 977880009684 Walker A/P-loop; other site 977880009685 ATP binding site [chemical binding]; other site 977880009686 Q-loop/lid; other site 977880009687 ABC transporter signature motif; other site 977880009688 Walker B; other site 977880009689 D-loop; other site 977880009690 H-loop/switch region; other site 977880009691 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 977880009692 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 977880009693 Walker A/P-loop; other site 977880009694 ATP binding site [chemical binding]; other site 977880009695 Q-loop/lid; other site 977880009696 ABC transporter signature motif; other site 977880009697 Walker B; other site 977880009698 D-loop; other site 977880009699 H-loop/switch region; other site 977880009700 choline dehydrogenase; Validated; Region: PRK02106 977880009701 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 977880009702 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 977880009703 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 977880009704 tetrameric interface [polypeptide binding]; other site 977880009705 NAD binding site [chemical binding]; other site 977880009706 catalytic residues [active] 977880009707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880009708 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 977880009709 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 977880009710 dimerization interface [polypeptide binding]; other site 977880009711 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 977880009712 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 977880009713 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 977880009714 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 977880009715 DNA binding residues [nucleotide binding] 977880009716 dimer interface [polypeptide binding]; other site 977880009717 copper binding site [ion binding]; other site 977880009718 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 977880009719 metal-binding site [ion binding] 977880009720 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 977880009721 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 977880009722 metal-binding site [ion binding] 977880009723 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 977880009724 Soluble P-type ATPase [General function prediction only]; Region: COG4087 977880009725 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 977880009726 metal-binding site [ion binding] 977880009727 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 977880009728 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 977880009729 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 977880009730 SCP-2 sterol transfer family; Region: SCP2; pfam02036 977880009731 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880009732 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880009733 ornithine cyclodeaminase; Validated; Region: PRK07340 977880009734 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 977880009735 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 977880009736 Transglycosylase; Region: Transgly; pfam00912 977880009737 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 977880009738 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 977880009739 Predicted membrane protein [Function unknown]; Region: COG3714 977880009740 Bacterial Ig-like domain; Region: Big_5; pfam13205 977880009741 MG2 domain; Region: A2M_N; pfam01835 977880009742 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 977880009743 Alpha-2-macroglobulin family; Region: A2M; pfam00207 977880009744 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 977880009745 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 977880009746 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 977880009747 putative DNA binding site [nucleotide binding]; other site 977880009748 AsnC family; Region: AsnC_trans_reg; pfam01037 977880009749 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 977880009750 cofactor binding site; other site 977880009751 metal binding site [ion binding]; metal-binding site 977880009752 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 977880009753 aromatic arch; other site 977880009754 DCoH dimer interaction site [polypeptide binding]; other site 977880009755 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 977880009756 DCoH tetramer interaction site [polypeptide binding]; other site 977880009757 substrate binding site [chemical binding]; other site 977880009758 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 977880009759 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 977880009760 active site 977880009761 phosphorylation site [posttranslational modification] 977880009762 intermolecular recognition site; other site 977880009763 dimerization interface [polypeptide binding]; other site 977880009764 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 977880009765 DNA binding site [nucleotide binding] 977880009766 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 977880009767 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 977880009768 dimer interface [polypeptide binding]; other site 977880009769 phosphorylation site [posttranslational modification] 977880009770 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 977880009771 ATP binding site [chemical binding]; other site 977880009772 Mg2+ binding site [ion binding]; other site 977880009773 G-X-G motif; other site 977880009774 Proteins containing SET domain [General function prediction only]; Region: COG2940 977880009775 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 977880009776 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 977880009777 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 977880009778 IHF dimer interface [polypeptide binding]; other site 977880009779 IHF - DNA interface [nucleotide binding]; other site 977880009780 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; pfam10030 977880009781 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 977880009782 active site 977880009783 DNA polymerase IV; Validated; Region: PRK02406 977880009784 DNA binding site [nucleotide binding] 977880009785 Predicted permeases [General function prediction only]; Region: RarD; COG2962 977880009786 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 977880009787 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 977880009788 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 977880009789 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; cl00200 977880009790 amphipathic channel; other site 977880009791 Asn-Pro-Ala signature motifs; other site 977880009792 Response regulator receiver domain; Region: Response_reg; pfam00072 977880009793 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 977880009794 active site 977880009795 phosphorylation site [posttranslational modification] 977880009796 intermolecular recognition site; other site 977880009797 dimerization interface [polypeptide binding]; other site 977880009798 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 977880009799 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 977880009800 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 977880009801 dimerization interface [polypeptide binding]; other site 977880009802 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 977880009803 dimer interface [polypeptide binding]; other site 977880009804 phosphorylation site [posttranslational modification] 977880009805 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 977880009806 ATP binding site [chemical binding]; other site 977880009807 Mg2+ binding site [ion binding]; other site 977880009808 G-X-G motif; other site 977880009809 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 977880009810 16S rRNA methyltransferase B; Provisional; Region: PRK10901 977880009811 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 977880009812 S-adenosylmethionine binding site [chemical binding]; other site 977880009813 M48 family peptidase; Provisional; Region: PRK03001 977880009814 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 977880009815 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 977880009816 putative active site [active] 977880009817 substrate binding site [chemical binding]; other site 977880009818 putative cosubstrate binding site; other site 977880009819 catalytic site [active] 977880009820 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 977880009821 substrate binding site [chemical binding]; other site 977880009822 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 977880009823 active site 977880009824 catalytic residues [active] 977880009825 metal binding site [ion binding]; metal-binding site 977880009826 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 977880009827 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 977880009828 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 977880009829 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 977880009830 DNA protecting protein DprA; Region: dprA; TIGR00732 977880009831 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 977880009832 catalytic residues [active] 977880009833 DNA topoisomerase III; Validated; Region: PRK08173 977880009834 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 977880009835 active site 977880009836 putative interdomain interaction site [polypeptide binding]; other site 977880009837 putative metal-binding site [ion binding]; other site 977880009838 putative nucleotide binding site [chemical binding]; other site 977880009839 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 977880009840 domain I; other site 977880009841 DNA binding groove [nucleotide binding] 977880009842 phosphate binding site [ion binding]; other site 977880009843 domain II; other site 977880009844 domain III; other site 977880009845 nucleotide binding site [chemical binding]; other site 977880009846 catalytic site [active] 977880009847 domain IV; other site 977880009848 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 977880009849 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 977880009850 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880009851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880009852 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 977880009853 putative effector binding pocket; other site 977880009854 dimerization interface [polypeptide binding]; other site 977880009855 Protein of unknown function (DUF466); Region: DUF466; pfam04328 977880009856 carbon starvation protein A; Provisional; Region: PRK15015 977880009857 Carbon starvation protein CstA; Region: CstA; pfam02554 977880009858 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 977880009859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 977880009860 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 977880009861 Histidine kinase; Region: HisKA_3; pfam07730 977880009862 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 977880009863 ATP binding site [chemical binding]; other site 977880009864 Mg2+ binding site [ion binding]; other site 977880009865 G-X-G motif; other site 977880009866 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880009867 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 977880009868 active site 977880009869 phosphorylation site [posttranslational modification] 977880009870 intermolecular recognition site; other site 977880009871 dimerization interface [polypeptide binding]; other site 977880009872 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 977880009873 DNA binding residues [nucleotide binding] 977880009874 dimerization interface [polypeptide binding]; other site 977880009875 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 977880009876 active site 977880009877 substrate-binding site [chemical binding]; other site 977880009878 metal-binding site [ion binding] 977880009879 GTP binding site [chemical binding]; other site 977880009880 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 977880009881 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 977880009882 dimerization interface [polypeptide binding]; other site 977880009883 NAD binding site [chemical binding]; other site 977880009884 ligand binding site [chemical binding]; other site 977880009885 catalytic site [active] 977880009886 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880009887 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880009888 putative substrate translocation pore; other site 977880009889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 977880009890 MOSC domain; Region: MOSC; pfam03473 977880009891 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 977880009892 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880009893 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880009894 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 977880009895 Protein of unknown function, DUF399; Region: DUF399; pfam04187 977880009896 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880009897 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 977880009898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 977880009899 Putative ammonia monooxygenase; Region: AmoA; pfam05145 977880009900 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 977880009901 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 977880009902 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 977880009903 CoenzymeA binding site [chemical binding]; other site 977880009904 subunit interaction site [polypeptide binding]; other site 977880009905 PHB binding site; other site 977880009906 Patatin-like phospholipase; Region: Patatin; pfam01734 977880009907 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 977880009908 glutathione reductase; Validated; Region: PRK06116 977880009909 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880009910 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 977880009911 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 977880009912 Transposase, Mutator family; Region: Transposase_mut; pfam00872 977880009913 MULE transposase domain; Region: MULE; pfam10551 977880009914 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 977880009915 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880009916 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 977880009917 dimer interface [polypeptide binding]; other site 977880009918 phosphorylation site [posttranslational modification] 977880009919 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 977880009920 ATP binding site [chemical binding]; other site 977880009921 Mg2+ binding site [ion binding]; other site 977880009922 G-X-G motif; other site 977880009923 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 977880009924 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 977880009925 active site 977880009926 phosphorylation site [posttranslational modification] 977880009927 intermolecular recognition site; other site 977880009928 dimerization interface [polypeptide binding]; other site 977880009929 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 977880009930 DNA binding site [nucleotide binding] 977880009931 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 977880009932 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 977880009933 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 977880009934 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880009935 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 977880009936 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 977880009937 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880009938 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880009939 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 977880009940 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 977880009941 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 977880009942 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 977880009943 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 977880009944 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 977880009945 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880009946 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880009947 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 977880009948 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 977880009949 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 977880009950 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 977880009951 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880009952 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 977880009953 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 977880009954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880009955 NAD(P) binding site [chemical binding]; other site 977880009956 active site 977880009957 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 977880009958 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880009959 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 977880009960 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 977880009961 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 977880009962 Rubredoxin [Energy production and conversion]; Region: COG1773 977880009963 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 977880009964 iron binding site [ion binding]; other site 977880009965 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 977880009966 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 977880009967 DNA binding residues [nucleotide binding] 977880009968 putative dimer interface [polypeptide binding]; other site 977880009969 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880009970 cell density-dependent motility repressor; Provisional; Region: PRK10082 977880009971 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 977880009972 dimerization interface [polypeptide binding]; other site 977880009973 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880009974 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 977880009975 putative active site [active] 977880009976 Zn binding site [ion binding]; other site 977880009977 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 977880009978 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 977880009979 BRO family, N-terminal domain; Region: Bro-N; pfam02498 977880009980 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 977880009981 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 977880009982 trmE is a tRNA modification GTPase; Region: trmE; cd04164 977880009983 G1 box; other site 977880009984 GTP/Mg2+ binding site [chemical binding]; other site 977880009985 Switch I region; other site 977880009986 G2 box; other site 977880009987 Switch II region; other site 977880009988 G3 box; other site 977880009989 G4 box; other site 977880009990 G5 box; other site 977880009991 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 977880009992 CHAD domain; Region: CHAD; pfam05235 977880009993 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 977880009994 CoenzymeA binding site [chemical binding]; other site 977880009995 subunit interaction site [polypeptide binding]; other site 977880009996 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 977880009997 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880009998 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 977880009999 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 977880010000 S-adenosylmethionine binding site [chemical binding]; other site 977880010001 membrane protein insertase; Provisional; Region: PRK01318 977880010002 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 977880010003 hypothetical protein; Validated; Region: PRK00041 977880010004 Ribonuclease P; Region: Ribonuclease_P; cl00457 977880010005 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 977880010006 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 977880010007 DNA methylase; Region: N6_N4_Mtase; pfam01555 977880010008 DNA methylase; Region: N6_N4_Mtase; cl17433 977880010009 Restriction endonuclease [Defense mechanisms]; Region: COG3587 977880010010 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 977880010011 ATP binding site [chemical binding]; other site 977880010012 putative Mg++ binding site [ion binding]; other site 977880010013 Methyltransferase domain; Region: Methyltransf_26; pfam13659 977880010014 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880010015 Integrase core domain; Region: rve; pfam00665 977880010016 transposase; Validated; Region: PRK08181 977880010017 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 977880010018 Walker A motif; other site 977880010019 ATP binding site [chemical binding]; other site 977880010020 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880010021 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880010022 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 977880010023 Transposase; Region: DDE_Tnp_ISL3; pfam01610 977880010024 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880010025 TIGR02679 family protein; Region: TIGR02679 977880010026 Protein of unknown function C-terminus (DUF2399); Region: DUF2399; pfam09664 977880010027 TIGR02680 family protein; Region: TIGR02680 977880010028 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 977880010029 Protein of unknown function (DUF2398); Region: DUF2398; cl09875 977880010030 TIGR02677 family protein; Region: TIGR02677 977880010031 Protein of unknown function (DUF2397); Region: DUF2397; pfam09660 977880010032 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 977880010033 RNA binding site [nucleotide binding]; other site 977880010034 Patatin-like phospholipase; Region: Patatin; pfam01734 977880010035 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 977880010036 Transposase; Region: HTH_Tnp_1; cl17663 977880010037 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; cl01776 977880010038 Predicted ATPase [General function prediction only]; Region: COG5293 977880010039 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 977880010040 SEC-C motif; Region: SEC-C; pfam02810 977880010041 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 977880010042 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880010043 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880010044 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 977880010045 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 977880010046 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 977880010047 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 977880010048 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 977880010049 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 977880010050 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 977880010051 short chain dehydrogenase; Provisional; Region: PRK06172 977880010052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880010053 NAD(P) binding site [chemical binding]; other site 977880010054 active site 977880010055 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010056 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 977880010057 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 977880010058 Transposase; Region: DEDD_Tnp_IS110; pfam01548 977880010059 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 977880010060 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 977880010061 Transposase, Mutator family; Region: Transposase_mut; pfam00872 977880010062 MULE transposase domain; Region: MULE; pfam10551 977880010063 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010064 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010065 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 977880010066 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010067 Transposase; Region: HTH_Tnp_1; pfam01527 977880010068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 977880010069 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 977880010070 active site 977880010071 nucleophile elbow; other site 977880010072 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880010073 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 977880010074 trimer interface [polypeptide binding]; other site 977880010075 eyelet of channel; other site 977880010076 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 977880010077 dimer interface [polypeptide binding]; other site 977880010078 putative inhibitory loop; other site 977880010079 DNA binding domain, excisionase family; Region: excise; TIGR01764 977880010080 PIN domain; Region: PIN_3; pfam13470 977880010081 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 977880010082 DNA-binding site [nucleotide binding]; DNA binding site 977880010083 RNA-binding motif; other site 977880010084 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 977880010085 Restriction endonuclease; Region: Mrr_cat; pfam04471 977880010086 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 977880010087 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010088 Transposase, Mutator family; Region: Transposase_mut; pfam00872 977880010089 MULE transposase domain; Region: MULE; pfam10551 977880010090 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 977880010091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880010092 sorbitol-6-phosphate 2-dehydrogenase; Provisional; Region: PRK06171 977880010093 NAD(P) binding site [chemical binding]; other site 977880010094 active site 977880010095 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 977880010096 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 977880010097 dimer interface [polypeptide binding]; other site 977880010098 active site 977880010099 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 977880010100 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 977880010101 ligand binding site [chemical binding]; other site 977880010102 flexible hinge region; other site 977880010103 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 977880010104 putative switch regulator; other site 977880010105 non-specific DNA interactions [nucleotide binding]; other site 977880010106 DNA binding site [nucleotide binding] 977880010107 sequence specific DNA binding site [nucleotide binding]; other site 977880010108 putative cAMP binding site [chemical binding]; other site 977880010109 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880010110 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880010111 Tannase and feruloyl esterase; Region: Tannase; pfam07519 977880010112 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 977880010113 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 977880010114 putative active site [active] 977880010115 putative NTP binding site [chemical binding]; other site 977880010116 putative nucleic acid binding site [nucleotide binding]; other site 977880010117 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 977880010118 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880010119 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 977880010120 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010121 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010122 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010123 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010124 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010125 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 977880010126 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 977880010127 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 977880010128 active site 977880010129 DNA binding site [nucleotide binding] 977880010130 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 977880010131 DNA binding site [nucleotide binding] 977880010132 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 977880010133 nucleotide binding site [chemical binding]; other site 977880010134 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 977880010135 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 977880010136 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 977880010137 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 977880010138 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 977880010139 putative active site [active] 977880010140 putative PHP Thumb interface [polypeptide binding]; other site 977880010141 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 977880010142 generic binding surface II; other site 977880010143 generic binding surface I; other site 977880010144 DNA Polymerase Y-family; Region: PolY_like; cd03468 977880010145 active site 977880010146 DNA binding site [nucleotide binding] 977880010147 Uncharacterized conserved protein [Function unknown]; Region: COG4544 977880010148 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 977880010149 Divergent AAA domain; Region: AAA_4; pfam04326 977880010150 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 977880010151 Helix-turn-helix domain; Region: HTH_20; pfam12840 977880010152 dimerization interface [polypeptide binding]; other site 977880010153 putative DNA binding site [nucleotide binding]; other site 977880010154 putative Zn2+ binding site [ion binding]; other site 977880010155 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 977880010156 hypothetical protein; Provisional; Region: PRK06153 977880010157 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; cd01483 977880010158 ATP binding site [chemical binding]; other site 977880010159 substrate interface [chemical binding]; other site 977880010160 hypothetical protein; Provisional; Region: PRK08204 977880010161 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 977880010162 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 977880010163 non-specific DNA binding site [nucleotide binding]; other site 977880010164 salt bridge; other site 977880010165 sequence-specific DNA binding site [nucleotide binding]; other site 977880010166 Domain of unknown function (DUF955); Region: DUF955; pfam06114 977880010167 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 977880010168 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 977880010169 Transposase; Region: HTH_Tnp_1; pfam01527 977880010170 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 977880010171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010172 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 977880010173 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 977880010174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010175 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 977880010176 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 977880010177 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 977880010178 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 977880010179 dimer interface [polypeptide binding]; other site 977880010180 DNA binding site [nucleotide binding] 977880010181 active site 977880010182 Int/Topo IB signature motif; other site 977880010183 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 977880010184 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 977880010185 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 977880010186 Calcium binding; Region: Calci_bind_CcbP; pfam11535 977880010187 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 977880010188 active site 977880010189 Int/Topo IB signature motif; other site 977880010190 DNA binding site [nucleotide binding] 977880010191 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 977880010192 IHF - DNA interface [nucleotide binding]; other site 977880010193 IHF dimer interface [polypeptide binding]; other site 977880010194 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 977880010195 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880010196 Walker A/P-loop; other site 977880010197 ATP binding site [chemical binding]; other site 977880010198 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 977880010199 active site 977880010200 metal binding site [ion binding]; metal-binding site 977880010201 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 977880010202 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 977880010203 putative active site [active] 977880010204 putative NTP binding site [chemical binding]; other site 977880010205 putative nucleic acid binding site [nucleotide binding]; other site 977880010206 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 977880010207 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 977880010208 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 977880010209 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 977880010210 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 977880010211 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 977880010212 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 977880010213 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 977880010214 DNA methylase; Region: N6_N4_Mtase; pfam01555 977880010215 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 977880010216 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 977880010217 substrate binding site [chemical binding]; other site 977880010218 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 977880010219 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; pfam01223 977880010220 active site 977880010221 Mg2+ binding site [ion binding]; other site 977880010222 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 977880010223 IHF dimer interface [polypeptide binding]; other site 977880010224 IHF - DNA interface [nucleotide binding]; other site 977880010225 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 977880010226 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 977880010227 active site 977880010228 catalytic residues [active] 977880010229 DNA binding site [nucleotide binding] 977880010230 Int/Topo IB signature motif; other site 977880010231 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 977880010232 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 977880010233 PRTRC system protein D; Region: PRTRC_D; TIGR03739 977880010234 Mg binding site [ion binding]; other site 977880010235 nucleotide binding site [chemical binding]; other site 977880010236 putative protofilament interface [polypeptide binding]; other site 977880010237 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 977880010238 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 977880010239 Toprim domain; Region: Toprim_3; pfam13362 977880010240 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 977880010241 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 977880010242 dimer interface [polypeptide binding]; other site 977880010243 ssDNA binding site [nucleotide binding]; other site 977880010244 tetramer (dimer of dimers) interface [polypeptide binding]; other site 977880010245 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 977880010246 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 977880010247 Transposase; Region: DDE_Tnp_ISL3; pfam01610 977880010248 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 977880010249 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 977880010250 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 977880010251 PilS N terminal; Region: PilS; pfam08805 977880010252 PilS N terminal; Region: PilS; pfam08805 977880010253 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 977880010254 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 977880010255 Type II/IV secretion system protein; Region: T2SE; pfam00437 977880010256 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 977880010257 Walker A motif; other site 977880010258 ATP binding site [chemical binding]; other site 977880010259 Walker B motif; other site 977880010260 type IV pilus biogenesis protein PilP; Region: pilP_fam; TIGR03021 977880010261 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 977880010262 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 977880010263 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 977880010264 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 977880010265 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 977880010266 N-acetyl-D-glucosamine binding site [chemical binding]; other site 977880010267 catalytic residue [active] 977880010268 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 977880010269 VirB7 interaction site; other site 977880010270 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 977880010271 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 977880010272 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 977880010273 VirB7 interaction site; other site 977880010274 VirB8 protein; Region: VirB8; pfam04335 977880010275 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 977880010276 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 977880010277 ATP binding site [chemical binding]; other site 977880010278 Walker A motif; other site 977880010279 hexamer interface [polypeptide binding]; other site 977880010280 Walker B motif; other site 977880010281 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 977880010282 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 977880010283 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 977880010284 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 977880010285 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 977880010286 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 977880010287 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 977880010288 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 977880010289 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 977880010290 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 977880010291 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 977880010292 Family description; Region: UvrD_C_2; pfam13538 977880010293 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010294 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010295 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010296 Transposase, Mutator family; Region: Transposase_mut; pfam00872 977880010297 MULE transposase domain; Region: MULE; pfam10551 977880010298 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 977880010299 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 977880010300 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 977880010301 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880010302 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880010303 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 977880010304 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 977880010305 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 977880010306 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880010307 Walker A/P-loop; other site 977880010308 ATP binding site [chemical binding]; other site 977880010309 Q-loop/lid; other site 977880010310 ABC transporter signature motif; other site 977880010311 Walker B; other site 977880010312 D-loop; other site 977880010313 H-loop/switch region; other site 977880010314 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010315 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 977880010316 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010317 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 977880010318 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 977880010319 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880010320 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880010321 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 977880010322 dimerization interface [polypeptide binding]; other site 977880010323 Transposase; Region: HTH_Tnp_1; cl17663 977880010324 Winged helix-turn helix; Region: HTH_29; pfam13551 977880010325 Homeodomain-like domain; Region: HTH_32; pfam13565 977880010326 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 977880010327 Integrase core domain; Region: rve_3; pfam13683 977880010328 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010329 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010330 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010331 Glycosyl hydrolase family 12; Region: Glyco_hydro_12; cl03302 977880010332 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880010333 putative transposase OrfB; Reviewed; Region: PHA02517 977880010334 Integrase core domain; Region: rve; pfam00665 977880010335 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880010336 putative transposase OrfB; Reviewed; Region: PHA02517 977880010337 HTH-like domain; Region: HTH_21; pfam13276 977880010338 Integrase core domain; Region: rve; pfam00665 977880010339 Integrase core domain; Region: rve_3; pfam13683 977880010340 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 977880010341 Transposase; Region: HTH_Tnp_1; cl17663 977880010342 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010343 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 977880010344 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor 977880010345 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010346 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 977880010347 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 977880010348 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 977880010349 active site 977880010350 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 977880010351 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010352 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010353 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010354 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 977880010355 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 977880010356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010357 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010358 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 977880010359 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 977880010360 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor 977880010361 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010362 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010363 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010364 transposase/IS protein; Provisional; Region: PRK09183 977880010365 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 977880010366 Walker A motif; other site 977880010367 ATP binding site [chemical binding]; other site 977880010368 Walker B motif; other site 977880010369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 977880010370 Integrase core domain; Region: rve; pfam00665 977880010371 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 977880010372 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 977880010373 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 977880010374 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 977880010375 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 977880010376 dimerization interface [polypeptide binding]; other site 977880010377 PAS domain S-box; Region: sensory_box; TIGR00229 977880010378 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 977880010379 putative active site [active] 977880010380 heme pocket [chemical binding]; other site 977880010381 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880010382 Histidine kinase; Region: HisKA_3; pfam07730 977880010383 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 977880010384 ATP binding site [chemical binding]; other site 977880010385 Mg2+ binding site [ion binding]; other site 977880010386 G-X-G motif; other site 977880010387 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010388 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 977880010389 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 977880010390 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880010391 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 977880010392 active site 977880010393 phosphorylation site [posttranslational modification] 977880010394 intermolecular recognition site; other site 977880010395 dimerization interface [polypeptide binding]; other site 977880010396 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 977880010397 DNA binding residues [nucleotide binding] 977880010398 dimerization interface [polypeptide binding]; other site 977880010399 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 977880010400 active site 977880010401 catalytic residues [active] 977880010402 Integrase core domain; Region: rve; pfam00665 977880010403 transposase; Validated; Region: PRK08181 977880010404 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 977880010405 Walker A motif; other site 977880010406 ATP binding site [chemical binding]; other site 977880010407 Phage integrase protein; Region: DUF3701; pfam12482 977880010408 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 977880010409 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 977880010410 DNA binding site [nucleotide binding] 977880010411 Int/Topo IB signature motif; other site 977880010412 active site 977880010413 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 977880010414 Transposase; Region: DDE_Tnp_ISL3; pfam01610 977880010415 ParB-like nuclease domain; Region: ParB; smart00470 977880010416 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 977880010417 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 977880010418 P-loop; other site 977880010419 Magnesium ion binding site [ion binding]; other site 977880010420 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 977880010421 Magnesium ion binding site [ion binding]; other site 977880010422 Initiator Replication protein; Region: Rep_3; pfam01051 977880010423 HTH domain; Region: HTH_22; pfam13309 977880010424 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 977880010425 putative DNA binding site [nucleotide binding]; other site 977880010426 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010427 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010428 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010429 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 977880010430 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 977880010431 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 977880010432 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 977880010433 Transposase; Region: DDE_Tnp_ISL3; pfam01610 977880010434 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010435 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 977880010436 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 977880010437 active site 977880010438 non-prolyl cis peptide bond; other site 977880010439 Flavin Reductases; Region: FlaRed; cl00801 977880010440 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880010441 Evidence 1b : Function experimentally demonstrated in the studied species; Product type e : enzyme 977880010442 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 977880010443 Na binding site [ion binding]; other site 977880010444 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 977880010445 active site 977880010446 homopentamer interface [polypeptide binding]; other site 977880010447 dimer interface [polypeptide binding]; other site 977880010448 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 977880010449 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880010450 Coenzyme A binding pocket [chemical binding]; other site 977880010451 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 977880010452 Transposase; Region: DDE_Tnp_ISL3; pfam01610 977880010453 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880010454 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 977880010455 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 977880010456 DNA binding residues [nucleotide binding] 977880010457 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 977880010458 Integrase core domain; Region: rve; pfam00665 977880010459 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 977880010460 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 977880010461 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 977880010462 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 977880010463 Walker A motif; other site 977880010464 ATP binding site [chemical binding]; other site 977880010465 Walker B motif; other site 977880010466 arginine finger; other site 977880010467 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010468 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010469 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010470 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010471 transposase; Validated; Region: PRK08181 977880010472 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 977880010473 Walker A motif; other site 977880010474 ATP binding site [chemical binding]; other site 977880010475 Integrase core domain; Region: rve; pfam00665 977880010476 VPS10 domain; Region: VPS10; smart00602 977880010477 HTH-like domain; Region: HTH_21; pfam13276 977880010478 Integrase core domain; Region: rve; pfam00665 977880010479 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 977880010480 Transposase; Region: HTH_Tnp_1; cl17663 977880010481 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010482 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 977880010483 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 977880010484 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 977880010485 Walker A motif; other site 977880010486 ATP binding site [chemical binding]; other site 977880010487 Walker B motif; other site 977880010488 arginine finger; other site 977880010489 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 977880010490 Integrase core domain; Region: rve; pfam00665 977880010491 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 977880010492 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 977880010493 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 977880010494 DNA binding residues [nucleotide binding] 977880010495 Hemerythrin-like domain; Region: Hr-like; cd12108 977880010496 Fe binding site [ion binding]; other site 977880010497 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880010498 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010499 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 977880010500 ligand-binding site [chemical binding]; other site 977880010501 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 977880010502 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 977880010503 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 977880010504 S-adenosylmethionine binding site [chemical binding]; other site 977880010505 Nodulation protein A (NodA); Region: NodA; pfam02474 977880010506 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 977880010507 ABC-2 type transporter; Region: ABC2_membrane; cl17235 977880010508 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 977880010509 ATP-binding ABC transporter family nodulation protein NodI; Region: nodI; TIGR01288 977880010510 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880010511 Walker A/P-loop; other site 977880010512 ATP binding site [chemical binding]; other site 977880010513 Q-loop/lid; other site 977880010514 ABC transporter signature motif; other site 977880010515 Walker B; other site 977880010516 D-loop; other site 977880010517 H-loop/switch region; other site 977880010518 chitooligosaccharide synthase NodC; Region: nodulat_NodC; TIGR04242 977880010519 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 977880010520 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 977880010521 DXD motif; other site 977880010522 chitooligosaccharide deacetylase NodB; Region: nodulat_NodB; TIGR04243 977880010523 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 977880010524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880010525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880010526 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 977880010527 putative substrate binding pocket [chemical binding]; other site 977880010528 putative dimerization interface [polypeptide binding]; other site 977880010529 Nif-specific regulatory protein; Region: nifA; TIGR01817 977880010530 GAF domain; Region: GAF; pfam01590 977880010531 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 977880010532 Walker A motif; other site 977880010533 ATP binding site [chemical binding]; other site 977880010534 Walker B motif; other site 977880010535 arginine finger; other site 977880010536 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880010537 HTH-like domain; Region: HTH_21; pfam13276 977880010538 Integrase core domain; Region: rve; pfam00665 977880010539 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010540 Transposase; Region: DEDD_Tnp_IS110; pfam01548 977880010541 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 977880010542 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 977880010543 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010544 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 977880010545 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 977880010546 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 977880010547 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 977880010548 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 977880010549 Rop-like; Region: Rop-like; pfam05082 977880010550 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 977880010551 NifQ; Region: NifQ; pfam04891 977880010552 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 977880010553 oxidoreductase; Provisional; Region: PRK10015 977880010554 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 977880010555 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 977880010556 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 977880010557 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 977880010558 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 977880010559 Ligand binding site [chemical binding]; other site 977880010560 Electron transfer flavoprotein domain; Region: ETF; pfam01012 977880010561 Nitrogen fixation protein NifW; Region: NifW; pfam03206 977880010562 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 977880010563 active site 977880010564 metal binding site [ion binding]; metal-binding site 977880010565 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 977880010566 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 977880010567 FeS/SAM binding site; other site 977880010568 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 977880010569 hypothetical protein; Provisional; Region: PRK13795 977880010570 NifZ domain; Region: NifZ; pfam04319 977880010571 NifT/FixU protein; Region: NifT; pfam06988 977880010572 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 977880010573 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 977880010574 Nucleotide-binding sites [chemical binding]; other site 977880010575 Walker A motif; other site 977880010576 Switch I region of nucleotide binding site; other site 977880010577 Fe4S4 binding sites [ion binding]; other site 977880010578 Switch II region of nucleotide binding site; other site 977880010579 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 977880010580 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 977880010581 MoFe protein alpha/beta subunit interactions; other site 977880010582 Alpha subunit P cluster binding residues; other site 977880010583 FeMoco binding residues [chemical binding]; other site 977880010584 MoFe protein alpha subunit/Fe protein contacts; other site 977880010585 MoFe protein dimer/ dimer interactions; other site 977880010586 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 977880010587 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 977880010588 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 977880010589 MoFe protein beta/alpha subunit interactions; other site 977880010590 Beta subunit P cluster binding residues; other site 977880010591 MoFe protein beta subunit/Fe protein contacts; other site 977880010592 MoFe protein dimer/ dimer interactions; other site 977880010593 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 977880010594 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010595 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 977880010596 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010597 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 977880010598 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 977880010599 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 977880010600 transposase/IS protein; Provisional; Region: PRK09183 977880010601 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 977880010602 Walker A motif; other site 977880010603 ATP binding site [chemical binding]; other site 977880010604 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 977880010605 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 977880010606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880010607 homodimer interface [polypeptide binding]; other site 977880010608 catalytic residue [active] 977880010609 hypothetical protein; Provisional; Region: PRK08266 977880010610 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 977880010611 PYR/PP interface [polypeptide binding]; other site 977880010612 dimer interface [polypeptide binding]; other site 977880010613 TPP binding site [chemical binding]; other site 977880010614 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 977880010615 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 977880010616 TPP-binding site [chemical binding]; other site 977880010617 hypothetical protein; Provisional; Region: PRK05849 977880010618 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 977880010619 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 977880010620 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 977880010621 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880010622 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880010623 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 977880010624 Protein export membrane protein; Region: SecD_SecF; cl14618 977880010625 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 977880010626 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010627 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010628 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010629 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 977880010630 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010631 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 977880010632 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 977880010633 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 977880010634 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 977880010635 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010636 Transposase; Region: HTH_Tnp_1; pfam01527 977880010637 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 977880010638 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 977880010639 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 977880010640 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 977880010641 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 977880010642 Walker A motif; other site 977880010643 ATP binding site [chemical binding]; other site 977880010644 Walker B motif; other site 977880010645 Transposase; Region: HTH_Tnp_1; pfam01527 977880010646 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 977880010647 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010648 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 977880010649 transposase; Validated; Region: PRK08181 977880010650 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 977880010651 Walker A motif; other site 977880010652 ATP binding site [chemical binding]; other site 977880010653 Integrase core domain; Region: rve; pfam00665 977880010654 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 977880010655 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010656 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 977880010657 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 977880010658 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 977880010659 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010660 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 977880010661 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 977880010662 Interdomain contacts; other site 977880010663 Cytokine receptor motif; other site 977880010664 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010665 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010666 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010667 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 977880010668 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 977880010669 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 977880010670 NAD(P) binding site [chemical binding]; other site 977880010671 catalytic residues [active] 977880010672 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880010673 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 977880010674 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880010675 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 977880010676 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 977880010677 non-specific DNA binding site [nucleotide binding]; other site 977880010678 salt bridge; other site 977880010679 sequence-specific DNA binding site [nucleotide binding]; other site 977880010680 Cupin domain; Region: Cupin_2; cl17218 977880010681 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 977880010682 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 977880010683 putative transposase OrfB; Reviewed; Region: PHA02517 977880010684 HTH-like domain; Region: HTH_21; pfam13276 977880010685 Integrase core domain; Region: rve; pfam00665 977880010686 Integrase core domain; Region: rve_3; pfam13683 977880010687 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 977880010688 Transposase; Region: HTH_Tnp_1; cl17663 977880010689 Transposase; Region: DEDD_Tnp_IS110; pfam01548 977880010690 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010691 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010692 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010693 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 977880010694 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 977880010695 putative NAD(P) binding site [chemical binding]; other site 977880010696 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 977880010697 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 977880010698 TM-ABC transporter signature motif; other site 977880010699 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010700 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010701 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010702 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010703 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 977880010704 Transposase; Region: HTH_Tnp_1; cl17663 977880010705 Transposase; Region: DDE_Tnp_ISL3; pfam01610 977880010706 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 977880010707 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010708 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 977880010709 Cytochrome P450; Region: p450; cl12078 977880010710 Peptidase M30; Region: Peptidase_M30; pfam10460 977880010711 Peptidase M30; Region: Peptidase_M30; pfam10460 977880010712 Helix-turn-helix domain; Region: HTH_28; pfam13518 977880010713 Winged helix-turn helix; Region: HTH_29; pfam13551 977880010714 Homeodomain-like domain; Region: HTH_32; pfam13565 977880010715 Winged helix-turn helix; Region: HTH_29; pfam13551 977880010716 Homeodomain-like domain; Region: HTH_32; pfam13565 977880010717 Integrase core domain; Region: rve; pfam00665 977880010718 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 977880010719 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010720 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 977880010721 dinuclear metal binding motif [ion binding]; other site 977880010722 Toluene-4-monooxygenase system protein B (TmoB); Region: TmoB; pfam06234 977880010723 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 977880010724 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 977880010725 dimerization interface [polypeptide binding]; other site 977880010726 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010727 Evidence 2b : Function of strongly homologous gene; Product type r : regulator 977880010728 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 977880010729 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 977880010730 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010731 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010732 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010733 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010734 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 977880010735 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 977880010736 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010737 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010738 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 977880010739 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 977880010740 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 977880010741 Preprotein binding site; other site 977880010742 SecA binding site; other site 977880010743 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010744 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010745 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 977880010746 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 977880010747 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 977880010748 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010749 transposase; Validated; Region: PRK08181 977880010750 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 977880010751 Walker A motif; other site 977880010752 ATP binding site [chemical binding]; other site 977880010753 Integrase core domain; Region: rve; pfam00665 977880010754 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 977880010755 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010756 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010757 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010758 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010759 Amb_all domain; Region: Amb_all; smart00656 977880010760 Integrase core domain; Region: rve; pfam00665 977880010761 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010762 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010763 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 977880010764 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010765 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 977880010766 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010767 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 977880010768 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010769 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010770 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010771 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010772 Transposase, Mutator family; Region: Transposase_mut; pfam00872 977880010773 MULE transposase domain; Region: MULE; pfam10551 977880010774 Transposase; Region: DEDD_Tnp_IS110; pfam01548 977880010775 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 977880010776 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 977880010777 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 977880010778 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 977880010779 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010780 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010781 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 977880010782 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010783 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010784 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010785 H-NS histone family; Region: Histone_HNS; pfam00816 977880010786 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 977880010787 transposase; Validated; Region: PRK08181 977880010788 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 977880010789 Walker A motif; other site 977880010790 ATP binding site [chemical binding]; other site 977880010791 Integrase core domain; Region: rve; pfam00665 977880010792 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 977880010793 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010794 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 977880010795 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 977880010796 Interdomain contacts; other site 977880010797 Cytokine receptor motif; other site 977880010798 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010799 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 977880010800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010801 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 977880010802 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 977880010803 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 977880010804 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010805 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 977880010806 Transposase; Region: HTH_Tnp_1; pfam01527 977880010807 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 977880010808 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010809 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010810 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010811 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 977880010812 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 977880010813 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010814 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; cl17722 977880010815 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 977880010816 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 977880010817 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 977880010818 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010819 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 977880010820 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010821 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 977880010822 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 977880010823 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 977880010824 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010825 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 977880010826 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010827 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010828 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010829 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010830 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 977880010831 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 977880010832 AAA domain; Region: AAA_22; pfam13401 977880010833 Transposase; Region: HTH_Tnp_1; cl17663 977880010834 Integrase core domain; Region: rve; pfam00665 977880010835 Integrase core domain; Region: rve_3; pfam13683 977880010836 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 977880010837 DNA binding residues [nucleotide binding] 977880010838 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 977880010839 Integrase core domain; Region: rve; pfam00665 977880010840 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 977880010841 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 977880010842 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 977880010843 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 977880010844 Walker A motif; other site 977880010845 ATP binding site [chemical binding]; other site 977880010846 Walker B motif; other site 977880010847 arginine finger; other site 977880010848 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880010849 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 977880010850 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 977880010851 putative DNA binding site [nucleotide binding]; other site 977880010852 putative Zn2+ binding site [ion binding]; other site 977880010853 AsnC family; Region: AsnC_trans_reg; pfam01037 977880010854 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 977880010855 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 977880010856 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 977880010857 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010858 Beta-lactamase; Region: Beta-lactamase; cl17358 977880010859 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 977880010860 Beta-lactamase; Region: Beta-lactamase; pfam00144 977880010861 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010862 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010863 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010864 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010865 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 977880010866 H+ Antiporter protein; Region: 2A0121; TIGR00900 977880010867 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880010868 putative substrate translocation pore; other site 977880010869 peptide synthase; Provisional; Region: PRK12316 977880010870 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 977880010871 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 977880010872 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 977880010873 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 977880010874 Phasin protein; Region: Phasin_2; pfam09361 977880010875 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 977880010876 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 977880010877 putative transposase OrfB; Reviewed; Region: PHA02517 977880010878 HTH-like domain; Region: HTH_21; pfam13276 977880010879 Integrase core domain; Region: rve; pfam00665 977880010880 Integrase core domain; Region: rve_3; pfam13683 977880010881 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 977880010882 Transposase; Region: HTH_Tnp_1; cl17663 977880010883 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 977880010884 DNA-binding site [nucleotide binding]; DNA binding site 977880010885 RNA-binding motif; other site 977880010886 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010887 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 977880010888 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 977880010889 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010890 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 977880010891 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 977880010892 Integrase core domain; Region: rve; pfam00665 977880010893 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 977880010894 Transposase; Region: DDE_Tnp_ISL3; pfam01610 977880010895 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 977880010896 Walker A motif; other site 977880010897 ATP binding site [chemical binding]; other site 977880010898 Walker B motif; other site 977880010899 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 977880010900 Integrase core domain; Region: rve; pfam00665 977880010901 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 977880010902 Walker A motif; other site 977880010903 ATP binding site [chemical binding]; other site 977880010904 Walker B motif; other site 977880010905 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010906 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010907 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880010908 Transposase domain (DUF772); Region: DUF772; pfam05598 977880010909 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 977880010910 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 977880010911 Evidence 2b : Function of strongly homologous gene; Product type r : regulator 977880010912 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 977880010913 DNA-binding interface [nucleotide binding]; DNA binding site 977880010914 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 977880010915 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880010916 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 977880010917 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 977880010918 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 977880010919 active site 977880010920 DNA binding site [nucleotide binding] 977880010921 Int/Topo IB signature motif; other site 977880010922 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 977880010923 DNA binding site [nucleotide binding] 977880010924 active site 977880010925 Int/Topo IB signature motif; other site 977880010926 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 977880010927 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 977880010928 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 977880010929 Walker A motif; other site 977880010930 ATP binding site [chemical binding]; other site 977880010931 Walker B motif; other site 977880010932 arginine finger; other site 977880010933 Fic/DOC family; Region: Fic; pfam02661 977880010934 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 977880010935 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 977880010936 Int/Topo IB signature motif; other site 977880010937 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 977880010938 putative active site [active] 977880010939 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 977880010940 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 977880010941 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 977880010942 MgtC family; Region: MgtC; pfam02308 977880010943 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 977880010944 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 977880010945 Walker A/P-loop; other site 977880010946 ATP binding site [chemical binding]; other site 977880010947 Q-loop/lid; other site 977880010948 ABC transporter signature motif; other site 977880010949 Walker B; other site 977880010950 D-loop; other site 977880010951 H-loop/switch region; other site 977880010952 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 977880010953 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 977880010954 dimer interface [polypeptide binding]; other site 977880010955 conserved gate region; other site 977880010956 putative PBP binding loops; other site 977880010957 ABC-ATPase subunit interface; other site 977880010958 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 977880010959 dimer interface [polypeptide binding]; other site 977880010960 conserved gate region; other site 977880010961 putative PBP binding loops; other site 977880010962 ABC-ATPase subunit interface; other site 977880010963 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 977880010964 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 977880010965 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 977880010966 active site 977880010967 DNA binding site [nucleotide binding] 977880010968 Int/Topo IB signature motif; other site 977880010969 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 977880010970 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 977880010971 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 977880010972 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 977880010973 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880010974 Outer membrane efflux protein; Region: OEP; pfam02321 977880010975 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 977880010976 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 977880010977 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880010978 putative substrate translocation pore; other site 977880010979 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 977880010980 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 977880010981 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 977880010982 ArsC family; Region: ArsC; pfam03960 977880010983 catalytic residues [active] 977880010984 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 977880010985 Sodium Bile acid symporter family; Region: SBF; cl17470 977880010986 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 977880010987 Low molecular weight phosphatase family; Region: LMWPc; cd00115 977880010988 active site 977880010989 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 977880010990 Low molecular weight phosphatase family; Region: LMWPc; cd00115 977880010991 active site 977880010992 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 977880010993 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880010994 putative metal binding site [ion binding]; other site 977880010995 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 977880010996 dimerization interface [polypeptide binding]; other site 977880010997 putative DNA binding site [nucleotide binding]; other site 977880010998 putative Zn2+ binding site [ion binding]; other site 977880010999 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 977880011000 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 977880011001 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 977880011002 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 977880011003 dimer interface [polypeptide binding]; other site 977880011004 DNA binding site [nucleotide binding] 977880011005 active site 977880011006 Int/Topo IB signature motif; other site 977880011007 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 977880011008 H-NS histone family; Region: Histone_HNS; pfam00816 977880011009 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 977880011010 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 977880011011 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 977880011012 Protein of unknown function DUF262; Region: DUF262; pfam03235 977880011013 Uncharacterized conserved protein [Function unknown]; Region: COG1479 977880011014 Uncharacterized conserved protein [Function unknown]; Region: COG4938 977880011015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880011016 Walker B; other site 977880011017 D-loop; other site 977880011018 H-loop/switch region; other site 977880011019 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 977880011020 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 977880011021 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 977880011022 Competence protein CoiA-like family; Region: CoiA; cl11541 977880011023 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 977880011024 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 977880011025 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 977880011026 Helix-turn-helix domain; Region: HTH_17; pfam12728 977880011027 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 977880011028 ATP binding site [chemical binding]; other site 977880011029 putative Mg++ binding site [ion binding]; other site 977880011030 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 977880011031 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 977880011032 nucleotide binding region [chemical binding]; other site 977880011033 ATP-binding site [chemical binding]; other site 977880011034 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 977880011035 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 977880011036 DNA-binding site [nucleotide binding]; DNA binding site 977880011037 RNA-binding motif; other site 977880011038 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 977880011039 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 977880011040 P-loop; other site 977880011041 Magnesium ion binding site [ion binding]; other site 977880011042 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 977880011043 ParB-like nuclease domain; Region: ParBc; pfam02195 977880011044 Phage integrase protein; Region: DUF3701; pfam12482 977880011045 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880011046 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 977880011047 DNA binding residues [nucleotide binding] 977880011048 dimerization interface [polypeptide binding]; other site 977880011049 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 977880011050 Bacterial sugar transferase; Region: Bac_transf; pfam02397 977880011051 acyl carrier protein; Provisional; Region: PRK07081 977880011052 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 977880011053 dimer interface [polypeptide binding]; other site 977880011054 motif 1; other site 977880011055 active site 977880011056 motif 2; other site 977880011057 motif 3; other site 977880011058 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 977880011059 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 977880011060 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 977880011061 ligand binding site [chemical binding]; other site 977880011062 flexible hinge region; other site 977880011063 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 977880011064 non-specific DNA interactions [nucleotide binding]; other site 977880011065 DNA binding site [nucleotide binding] 977880011066 sequence specific DNA binding site [nucleotide binding]; other site 977880011067 putative cAMP binding site [chemical binding]; other site 977880011068 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 977880011069 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 977880011070 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 977880011071 Substrate binding site; other site 977880011072 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 977880011073 tyrosine kinase; Provisional; Region: PRK11519 977880011074 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 977880011075 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 977880011076 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 977880011077 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 977880011078 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 977880011079 Transposase; Region: DEDD_Tnp_IS110; pfam01548 977880011080 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 977880011081 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 977880011082 Transposase; Region: DEDD_Tnp_IS110; pfam01548 977880011083 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 977880011084 tyrosine kinase; Provisional; Region: PRK11519 977880011085 Chain length determinant protein; Region: Wzz; pfam02706 977880011086 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 977880011087 Low molecular weight phosphatase family; Region: LMWPc; cd00115 977880011088 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 977880011089 active site 977880011090 polysaccharide export protein Wza; Provisional; Region: PRK15078 977880011091 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 977880011092 SLBB domain; Region: SLBB; pfam10531 977880011093 SLBB domain; Region: SLBB; pfam10531 977880011094 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 977880011095 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 977880011096 putative trimer interface [polypeptide binding]; other site 977880011097 putative active site [active] 977880011098 putative substrate binding site [chemical binding]; other site 977880011099 putative CoA binding site [chemical binding]; other site 977880011100 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880011101 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 977880011102 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 977880011103 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 977880011104 putative active site [active] 977880011105 putative metal binding site [ion binding]; other site 977880011106 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880011107 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 977880011108 putative ADP-binding pocket [chemical binding]; other site 977880011109 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880011110 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 977880011111 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880011112 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 977880011113 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 977880011114 S-adenosylmethionine binding site [chemical binding]; other site 977880011115 putative glycosyl transferase; Provisional; Region: PRK10307 977880011116 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 977880011117 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 977880011118 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 977880011119 NADP binding site [chemical binding]; other site 977880011120 active site 977880011121 putative substrate binding site [chemical binding]; other site 977880011122 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 977880011123 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 977880011124 NADP-binding site; other site 977880011125 homotetramer interface [polypeptide binding]; other site 977880011126 substrate binding site [chemical binding]; other site 977880011127 homodimer interface [polypeptide binding]; other site 977880011128 active site 977880011129 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 977880011130 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 977880011131 active site 977880011132 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880011133 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 977880011134 active site 977880011135 intermolecular recognition site; other site 977880011136 dimerization interface [polypeptide binding]; other site 977880011137 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880011138 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 977880011139 DNA binding residues [nucleotide binding] 977880011140 dimerization interface [polypeptide binding]; other site 977880011141 putative cyanate transporter; Provisional; Region: cynX; PRK09705 977880011142 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 977880011143 nucleoside/Zn binding site; other site 977880011144 dimer interface [polypeptide binding]; other site 977880011145 catalytic motif [active] 977880011146 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880011147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880011148 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 977880011149 dimerization interface [polypeptide binding]; other site 977880011150 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 977880011151 active site 977880011152 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 977880011153 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 977880011154 substrate binding site [chemical binding]; other site 977880011155 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 977880011156 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 977880011157 substrate binding site [chemical binding]; other site 977880011158 ligand binding site [chemical binding]; other site 977880011159 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880011160 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 977880011161 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880011162 DNA-binding site [nucleotide binding]; DNA binding site 977880011163 UTRA domain; Region: UTRA; pfam07702 977880011164 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_C39G; cd02423 977880011165 putative active site [active] 977880011166 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 977880011167 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 977880011168 putative ligand binding site [chemical binding]; other site 977880011169 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 977880011170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880011171 NAD(P) binding site [chemical binding]; other site 977880011172 active site 977880011173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880011174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880011175 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 977880011176 putative dimerization interface [polypeptide binding]; other site 977880011177 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 977880011178 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880011179 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 977880011180 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880011181 Coenzyme A binding pocket [chemical binding]; other site 977880011182 AMP nucleosidase; Provisional; Region: PRK08292 977880011183 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 977880011184 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 977880011185 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 977880011186 2-isopropylmalate synthase; Validated; Region: PRK03739 977880011187 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 977880011188 active site 977880011189 catalytic residues [active] 977880011190 metal binding site [ion binding]; metal-binding site 977880011191 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 977880011192 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 977880011193 ferrous iron transporter FeoB; Region: feoB; TIGR00437 977880011194 G1 box; other site 977880011195 GTP/Mg2+ binding site [chemical binding]; other site 977880011196 Switch I region; other site 977880011197 G2 box; other site 977880011198 G3 box; other site 977880011199 Switch II region; other site 977880011200 G4 box; other site 977880011201 G5 box; other site 977880011202 Nucleoside recognition; Region: Gate; pfam07670 977880011203 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 977880011204 Nucleoside recognition; Region: Gate; pfam07670 977880011205 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 977880011206 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880011207 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 977880011208 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_2; cd08448 977880011209 putative dimerization interface [polypeptide binding]; other site 977880011210 putative substrate binding pocket [chemical binding]; other site 977880011211 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880011212 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880011213 active site 977880011214 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880011215 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880011216 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880011217 L-lactate permease; Region: Lactate_perm; cl00701 977880011218 glycolate transporter; Provisional; Region: PRK09695 977880011219 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 977880011220 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 977880011221 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 977880011222 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 977880011223 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 977880011224 Cysteine-rich domain; Region: CCG; pfam02754 977880011225 Cysteine-rich domain; Region: CCG; pfam02754 977880011226 Transcriptional regulators [Transcription]; Region: FadR; COG2186 977880011227 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880011228 DNA-binding site [nucleotide binding]; DNA binding site 977880011229 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 977880011230 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 977880011231 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 977880011232 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 977880011233 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 977880011234 putative deacylase active site [active] 977880011235 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880011236 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880011237 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 977880011238 putative effector binding pocket; other site 977880011239 dimerization interface [polypeptide binding]; other site 977880011240 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 977880011241 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880011242 putative substrate translocation pore; other site 977880011243 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 977880011244 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 977880011245 FAD binding pocket [chemical binding]; other site 977880011246 FAD binding motif [chemical binding]; other site 977880011247 phosphate binding motif [ion binding]; other site 977880011248 beta-alpha-beta structure motif; other site 977880011249 NAD binding pocket [chemical binding]; other site 977880011250 fumarate hydratase; Reviewed; Region: fumC; PRK00485 977880011251 Class II fumarases; Region: Fumarase_classII; cd01362 977880011252 active site 977880011253 tetramer interface [polypeptide binding]; other site 977880011254 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880011255 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 977880011256 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 977880011257 dimerization interface [polypeptide binding]; other site 977880011258 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 977880011259 dimerization interface [polypeptide binding]; other site 977880011260 Cache domain; Region: Cache_1; pfam02743 977880011261 PAS fold; Region: PAS_4; pfam08448 977880011262 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 977880011263 putative active site [active] 977880011264 heme pocket [chemical binding]; other site 977880011265 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 977880011266 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880011267 metal binding site [ion binding]; metal-binding site 977880011268 active site 977880011269 I-site; other site 977880011270 CHASE domain; Region: CHASE; pfam03924 977880011271 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 977880011272 PAS domain; Region: PAS_9; pfam13426 977880011273 putative active site [active] 977880011274 heme pocket [chemical binding]; other site 977880011275 PAS domain S-box; Region: sensory_box; TIGR00229 977880011276 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 977880011277 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880011278 metal binding site [ion binding]; metal-binding site 977880011279 active site 977880011280 I-site; other site 977880011281 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 977880011282 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 977880011283 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880011284 Walker A/P-loop; other site 977880011285 ATP binding site [chemical binding]; other site 977880011286 Q-loop/lid; other site 977880011287 ABC transporter signature motif; other site 977880011288 Walker B; other site 977880011289 D-loop; other site 977880011290 H-loop/switch region; other site 977880011291 TOBE domain; Region: TOBE_2; pfam08402 977880011292 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 977880011293 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 977880011294 dimer interface [polypeptide binding]; other site 977880011295 conserved gate region; other site 977880011296 ABC-ATPase subunit interface; other site 977880011297 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 977880011298 dimer interface [polypeptide binding]; other site 977880011299 conserved gate region; other site 977880011300 putative PBP binding loops; other site 977880011301 ABC-ATPase subunit interface; other site 977880011302 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein; Region: phnS2; TIGR03261 977880011303 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 977880011304 Predicted transcriptional regulators [Transcription]; Region: COG1695 977880011305 Transcriptional regulator PadR-like family; Region: PadR; cl17335 977880011306 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 977880011307 EamA-like transporter family; Region: EamA; pfam00892 977880011308 EamA-like transporter family; Region: EamA; pfam00892 977880011309 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 977880011310 metal binding site 2 [ion binding]; metal-binding site 977880011311 putative DNA binding helix; other site 977880011312 metal binding site 1 [ion binding]; metal-binding site 977880011313 dimer interface [polypeptide binding]; other site 977880011314 structural Zn2+ binding site [ion binding]; other site 977880011315 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880011316 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 977880011317 trimer interface [polypeptide binding]; other site 977880011318 eyelet of channel; other site 977880011319 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 977880011320 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880011321 acyl-activating enzyme (AAE) consensus motif; other site 977880011322 AMP binding site [chemical binding]; other site 977880011323 active site 977880011324 CoA binding site [chemical binding]; other site 977880011325 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 977880011326 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880011327 Zn binding site [ion binding]; other site 977880011328 hypothetical protein; Provisional; Region: PRK07236 977880011329 hypothetical protein; Provisional; Region: PRK06847 977880011330 hypothetical protein; Provisional; Region: PRK07236 977880011331 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 977880011332 active site 977880011333 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 977880011334 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880011335 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880011336 putative substrate translocation pore; other site 977880011337 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880011338 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 977880011339 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880011340 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 977880011341 hypothetical protein; Provisional; Region: PRK06761 977880011342 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 977880011343 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 977880011344 Isochorismatase family; Region: Isochorismatase; pfam00857 977880011345 catalytic triad [active] 977880011346 dimer interface [polypeptide binding]; other site 977880011347 conserved cis-peptide bond; other site 977880011348 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 977880011349 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 977880011350 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 977880011351 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 977880011352 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880011353 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 977880011354 dimer interface [polypeptide binding]; other site 977880011355 phosphorylation site [posttranslational modification] 977880011356 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 977880011357 ATP binding site [chemical binding]; other site 977880011358 Mg2+ binding site [ion binding]; other site 977880011359 G-X-G motif; other site 977880011360 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 977880011361 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 977880011362 active site 977880011363 phosphorylation site [posttranslational modification] 977880011364 intermolecular recognition site; other site 977880011365 dimerization interface [polypeptide binding]; other site 977880011366 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 977880011367 PAS domain; Region: PAS_9; pfam13426 977880011368 putative active site [active] 977880011369 heme pocket [chemical binding]; other site 977880011370 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 977880011371 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880011372 dimer interface [polypeptide binding]; other site 977880011373 phosphorylation site [posttranslational modification] 977880011374 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 977880011375 ATP binding site [chemical binding]; other site 977880011376 Mg2+ binding site [ion binding]; other site 977880011377 G-X-G motif; other site 977880011378 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 977880011379 Response regulator receiver domain; Region: Response_reg; pfam00072 977880011380 active site 977880011381 phosphorylation site [posttranslational modification] 977880011382 intermolecular recognition site; other site 977880011383 dimerization interface [polypeptide binding]; other site 977880011384 Response regulator receiver domain; Region: Response_reg; pfam00072 977880011385 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 977880011386 active site 977880011387 phosphorylation site [posttranslational modification] 977880011388 intermolecular recognition site; other site 977880011389 dimerization interface [polypeptide binding]; other site 977880011390 PRC-barrel domain; Region: PRC; pfam05239 977880011391 elongation factor G; Reviewed; Region: PRK00007 977880011392 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 977880011393 G1 box; other site 977880011394 putative GEF interaction site [polypeptide binding]; other site 977880011395 GTP/Mg2+ binding site [chemical binding]; other site 977880011396 Switch I region; other site 977880011397 G2 box; other site 977880011398 G3 box; other site 977880011399 Switch II region; other site 977880011400 G4 box; other site 977880011401 G5 box; other site 977880011402 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 977880011403 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 977880011404 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 977880011405 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880011406 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 977880011407 active site 977880011408 phosphorylation site [posttranslational modification] 977880011409 intermolecular recognition site; other site 977880011410 dimerization interface [polypeptide binding]; other site 977880011411 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 977880011412 DNA binding residues [nucleotide binding] 977880011413 dimerization interface [polypeptide binding]; other site 977880011414 Transcriptional regulators [Transcription]; Region: FadR; COG2186 977880011415 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880011416 DNA-binding site [nucleotide binding]; DNA binding site 977880011417 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 977880011418 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 977880011419 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 977880011420 active site 977880011421 tetramer interface [polypeptide binding]; other site 977880011422 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880011423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880011424 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 977880011425 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 977880011426 dimer interface [polypeptide binding]; other site 977880011427 NADP binding site [chemical binding]; other site 977880011428 catalytic residues [active] 977880011429 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 977880011430 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 977880011431 putative active site [active] 977880011432 catalytic residue [active] 977880011433 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 977880011434 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 977880011435 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 977880011436 active site residue [active] 977880011437 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 977880011438 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880011439 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 977880011440 trimer interface [polypeptide binding]; other site 977880011441 eyelet of channel; other site 977880011442 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 977880011443 active site pocket [active] 977880011444 oxyanion hole [active] 977880011445 catalytic triad [active] 977880011446 active site nucleophile [active] 977880011447 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 977880011448 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 977880011449 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 977880011450 catalytic residue [active] 977880011451 OPT oligopeptide transporter protein; Region: OPT; cl14607 977880011452 OPT oligopeptide transporter protein; Region: OPT; cl14607 977880011453 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880011454 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 977880011455 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880011456 Evidence 4 : Homologs of previously reported genes of unknown function 977880011457 Evidence 4 : Homologs of previously reported genes of unknown function 977880011458 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880011459 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 977880011460 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880011461 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 977880011462 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 977880011463 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 977880011464 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 977880011465 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 977880011466 Walker A motif; other site 977880011467 ATP binding site [chemical binding]; other site 977880011468 Walker B motif; other site 977880011469 arginine finger; other site 977880011470 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880011471 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 977880011472 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880011473 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 977880011474 putative dimerization interface [polypeptide binding]; other site 977880011475 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 977880011476 Amidohydrolase; Region: Amidohydro_2; pfam04909 977880011477 D-galactonate transporter; Region: 2A0114; TIGR00893 977880011478 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880011479 putative substrate translocation pore; other site 977880011480 Uncharacterized conserved protein [Function unknown]; Region: COG3391 977880011481 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 977880011482 ATP-NAD kinase; Region: NAD_kinase; pfam01513 977880011483 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 977880011484 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 977880011485 tetramer interface [polypeptide binding]; other site 977880011486 TPP-binding site [chemical binding]; other site 977880011487 heterodimer interface [polypeptide binding]; other site 977880011488 phosphorylation loop region [posttranslational modification] 977880011489 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 977880011490 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 977880011491 alpha subunit interface [polypeptide binding]; other site 977880011492 TPP binding site [chemical binding]; other site 977880011493 heterodimer interface [polypeptide binding]; other site 977880011494 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 977880011495 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 977880011496 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 977880011497 E3 interaction surface; other site 977880011498 lipoyl attachment site [posttranslational modification]; other site 977880011499 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 977880011500 nucleophilic elbow; other site 977880011501 catalytic triad; other site 977880011502 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 977880011503 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 977880011504 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 977880011505 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 977880011506 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 977880011507 putative active site [active] 977880011508 putative metal binding site [ion binding]; other site 977880011509 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 977880011510 Transcriptional regulators [Transcription]; Region: MarR; COG1846 977880011511 MarR family; Region: MarR_2; cl17246 977880011512 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 977880011513 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 977880011514 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 977880011515 protein binding site [polypeptide binding]; other site 977880011516 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 977880011517 protein binding site [polypeptide binding]; other site 977880011518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880011519 putative substrate translocation pore; other site 977880011520 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880011521 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880011522 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 977880011523 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 977880011524 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 977880011525 Protein of unknown function DUF58; Region: DUF58; pfam01882 977880011526 MoxR-like ATPases [General function prediction only]; Region: COG0714 977880011527 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 977880011528 Walker A motif; other site 977880011529 ATP binding site [chemical binding]; other site 977880011530 Walker B motif; other site 977880011531 arginine finger; other site 977880011532 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 977880011533 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 977880011534 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 977880011535 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880011536 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 977880011537 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880011538 putative substrate translocation pore; other site 977880011539 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880011540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880011541 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 977880011542 putative effector binding pocket; other site 977880011543 dimerization interface [polypeptide binding]; other site 977880011544 YGGT family; Region: YGGT; pfam02325 977880011545 YGGT family; Region: YGGT; pfam02325 977880011546 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880011547 MarR family; Region: MarR_2; pfam12802 977880011548 Dienelactone hydrolase family; Region: DLH; pfam01738 977880011549 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 977880011550 PLD-like domain; Region: PLDc_2; pfam13091 977880011551 putative active site [active] 977880011552 catalytic site [active] 977880011553 Dodecin; Region: Dodecin; pfam07311 977880011554 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 977880011555 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 977880011556 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 977880011557 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 977880011558 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 977880011559 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 977880011560 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 977880011561 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 977880011562 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 977880011563 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 977880011564 Response regulator receiver domain; Region: Response_reg; pfam00072 977880011565 AAA domain; Region: AAA_31; pfam13614 977880011566 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 977880011567 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 977880011568 ATP binding site [chemical binding]; other site 977880011569 Walker A motif; other site 977880011570 hexamer interface [polypeptide binding]; other site 977880011571 Walker B motif; other site 977880011572 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 977880011573 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 977880011574 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 977880011575 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 977880011576 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 977880011577 TPR motif; other site 977880011578 binding surface 977880011579 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 977880011580 Predicted membrane protein [Function unknown]; Region: COG4655 977880011581 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 977880011582 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 977880011583 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 977880011584 Walker A motif; other site 977880011585 ATP binding site [chemical binding]; other site 977880011586 Walker B motif; other site 977880011587 arginine finger; other site 977880011588 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880011589 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 977880011590 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 977880011591 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 977880011592 active site 977880011593 metal binding site [ion binding]; metal-binding site 977880011594 DNA binding site [nucleotide binding] 977880011595 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 977880011596 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880011597 AAA domain; Region: AAA_23; pfam13476 977880011598 Walker A/P-loop; other site 977880011599 ATP binding site [chemical binding]; other site 977880011600 Q-loop/lid; other site 977880011601 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 977880011602 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880011603 ABC transporter signature motif; other site 977880011604 Walker B; other site 977880011605 D-loop; other site 977880011606 H-loop/switch region; other site 977880011607 Coenzyme A transferase; Region: CoA_trans; cl17247 977880011608 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 977880011609 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 977880011610 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 977880011611 dimer interface [polypeptide binding]; other site 977880011612 active site 977880011613 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 977880011614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880011615 NAD(P) binding site [chemical binding]; other site 977880011616 active site 977880011617 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880011618 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 977880011619 active site 977880011620 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 977880011621 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 977880011622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 977880011623 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 977880011624 Squalene/phytoene synthase; Region: SQS_PSY; pfam00494 977880011625 substrate binding pocket [chemical binding]; other site 977880011626 substrate-Mg2+ binding site; other site 977880011627 aspartate-rich region 1; other site 977880011628 aspartate-rich region 2; other site 977880011629 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 977880011630 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 977880011631 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880011632 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 977880011633 putative dimerization interface [polypeptide binding]; other site 977880011634 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 977880011635 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 977880011636 dimer interface [polypeptide binding]; other site 977880011637 NADP binding site [chemical binding]; other site 977880011638 catalytic residues [active] 977880011639 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 977880011640 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 977880011641 inhibitor site; inhibition site 977880011642 active site 977880011643 dimer interface [polypeptide binding]; other site 977880011644 catalytic residue [active] 977880011645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880011646 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880011647 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 977880011648 dimerization interface [polypeptide binding]; other site 977880011649 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880011650 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 977880011651 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 977880011652 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 977880011653 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. 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_2; cd03327 977880011654 putative active site pocket [active] 977880011655 putative metal binding site [ion binding]; other site 977880011656 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 977880011657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880011658 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 977880011659 dimerization interface [polypeptide binding]; other site 977880011660 dihydroxy-acid dehydratase; Validated; Region: PRK06131 977880011661 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 977880011662 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880011663 putative substrate translocation pore; other site 977880011664 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880011665 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880011666 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 977880011667 Coenzyme A binding pocket [chemical binding]; other site 977880011668 Predicted transcriptional regulators [Transcription]; Region: COG1695 977880011669 Transcriptional regulator PadR-like family; Region: PadR; cl17335 977880011670 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 977880011671 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 977880011672 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 977880011673 FMN binding site [chemical binding]; other site 977880011674 substrate binding site [chemical binding]; other site 977880011675 putative catalytic residue [active] 977880011676 SnoaL-like domain; Region: SnoaL_2; pfam12680 977880011677 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 977880011678 Int/Topo IB signature motif; other site 977880011679 DNA binding site [nucleotide binding] 977880011680 active site 977880011681 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 977880011682 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 977880011683 NAD binding site [chemical binding]; other site 977880011684 homodimer interface [polypeptide binding]; other site 977880011685 active site 977880011686 substrate binding site [chemical binding]; other site 977880011687 H-NS histone family; Region: Histone_HNS; pfam00816 977880011688 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 977880011689 Tar ligand binding domain homologue; Region: TarH; pfam02203 977880011690 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 977880011691 dimerization interface [polypeptide binding]; other site 977880011692 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880011693 dimer interface [polypeptide binding]; other site 977880011694 putative CheW interface [polypeptide binding]; other site 977880011695 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880011696 metal binding site [ion binding]; metal-binding site 977880011697 active site 977880011698 I-site; other site 977880011699 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 977880011700 Response regulator receiver domain; Region: Response_reg; pfam00072 977880011701 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 977880011702 active site 977880011703 phosphorylation site [posttranslational modification] 977880011704 intermolecular recognition site; other site 977880011705 dimerization interface [polypeptide binding]; other site 977880011706 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 977880011707 putative CheA interaction surface; other site 977880011708 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 977880011709 PAS fold; Region: PAS_3; pfam08447 977880011710 putative active site [active] 977880011711 heme pocket [chemical binding]; other site 977880011712 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 977880011713 dimerization interface [polypeptide binding]; other site 977880011714 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880011715 dimer interface [polypeptide binding]; other site 977880011716 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 977880011717 putative CheW interface [polypeptide binding]; other site 977880011718 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 977880011719 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 977880011720 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880011721 dimer interface [polypeptide binding]; other site 977880011722 putative CheW interface [polypeptide binding]; other site 977880011723 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 977880011724 transcriptional activator FlhD; Provisional; Region: PRK02909 977880011725 transcriptional activator FlhC; Provisional; Region: PRK12722 977880011726 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 977880011727 flagellar motor protein MotA; Validated; Region: PRK09110 977880011728 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 977880011729 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 977880011730 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 977880011731 ligand binding site [chemical binding]; other site 977880011732 chemotaxis protein CheA; Provisional; Region: PRK10547 977880011733 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 977880011734 putative binding surface; other site 977880011735 active site 977880011736 CheY binding; Region: CheY-binding; pfam09078 977880011737 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 977880011738 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 977880011739 ATP binding site [chemical binding]; other site 977880011740 Mg2+ binding site [ion binding]; other site 977880011741 G-X-G motif; other site 977880011742 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 977880011743 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 977880011744 putative CheA interaction surface; other site 977880011745 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 977880011746 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 977880011747 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 977880011748 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 977880011749 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 977880011750 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 977880011751 active site 977880011752 phosphorylation site [posttranslational modification] 977880011753 intermolecular recognition site; other site 977880011754 dimerization interface [polypeptide binding]; other site 977880011755 CheB methylesterase; Region: CheB_methylest; pfam01339 977880011756 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 977880011757 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 977880011758 active site 977880011759 phosphorylation site [posttranslational modification] 977880011760 intermolecular recognition site; other site 977880011761 dimerization interface [polypeptide binding]; other site 977880011762 chemotaxis regulator CheZ; Provisional; Region: PRK11166 977880011763 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 977880011764 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 977880011765 active site 977880011766 ATP binding site [chemical binding]; other site 977880011767 substrate binding site [chemical binding]; other site 977880011768 activation loop (A-loop); other site 977880011769 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 977880011770 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 977880011771 active site 977880011772 ATP binding site [chemical binding]; other site 977880011773 activation loop (A-loop); other site 977880011774 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 977880011775 Part of AAA domain; Region: AAA_19; pfam13245 977880011776 AAA domain; Region: AAA_11; pfam13086 977880011777 AAA domain; Region: AAA_12; pfam13087 977880011778 Protein of unknown function DUF91; Region: DUF91; cl00709 977880011779 SnoaL-like domain; Region: SnoaL_2; pfam12680 977880011780 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 977880011781 tetramer interface [polypeptide binding]; other site 977880011782 active site 977880011783 Mg2+/Mn2+ binding site [ion binding]; other site 977880011784 isocitrate lyase; Region: PLN02892 977880011785 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 977880011786 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 977880011787 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 977880011788 FHIPEP family; Region: FHIPEP; pfam00771 977880011789 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 977880011790 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 977880011791 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 977880011792 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 977880011793 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 977880011794 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 977880011795 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 977880011796 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 977880011797 DNA binding residues [nucleotide binding] 977880011798 Flagellar protein FlhE; Region: FlhE; pfam06366 977880011799 FlgN protein; Region: FlgN; pfam05130 977880011800 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 977880011801 SAF-like; Region: SAF_2; pfam13144 977880011802 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 977880011803 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 977880011804 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 977880011805 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 977880011806 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 977880011807 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 977880011808 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 977880011809 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 977880011810 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 977880011811 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 977880011812 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 977880011813 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 977880011814 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 977880011815 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 977880011816 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 977880011817 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 977880011818 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 977880011819 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 977880011820 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 977880011821 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 977880011822 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 977880011823 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 977880011824 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12712 977880011825 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 977880011826 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 977880011827 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 977880011828 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 977880011829 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 977880011830 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 977880011831 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 977880011832 binding surface 977880011833 TPR repeat; Region: TPR_11; pfam13414 977880011834 TPR motif; other site 977880011835 Tetratricopeptide repeat; Region: TPR_16; pfam13432 977880011836 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 977880011837 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 977880011838 putative homodimer interface [polypeptide binding]; other site 977880011839 putative DNA binding site [nucleotide binding]; other site 977880011840 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 977880011841 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 977880011842 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 977880011843 active site 977880011844 DNA binding site [nucleotide binding] 977880011845 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 977880011846 DNA binding site [nucleotide binding] 977880011847 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 977880011848 nucleotide binding site [chemical binding]; other site 977880011849 endo-1,4-D-glucanase; Provisional; Region: PRK11097 977880011850 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 977880011851 RibD C-terminal domain; Region: RibD_C; cl17279 977880011852 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 977880011853 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880011854 Walker A/P-loop; other site 977880011855 ATP binding site [chemical binding]; other site 977880011856 Q-loop/lid; other site 977880011857 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 977880011858 ABC transporter signature motif; other site 977880011859 Walker B; other site 977880011860 D-loop; other site 977880011861 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 977880011862 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 977880011863 active site 977880011864 intersubunit interface [polypeptide binding]; other site 977880011865 catalytic residue [active] 977880011866 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 977880011867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 977880011868 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 977880011869 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 977880011870 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 977880011871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 977880011872 Peptidase family M23; Region: Peptidase_M23; pfam01551 977880011873 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 977880011874 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880011875 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880011876 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 977880011877 putative effector binding pocket; other site 977880011878 putative dimerization interface [polypeptide binding]; other site 977880011879 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 977880011880 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880011881 putative substrate translocation pore; other site 977880011882 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880011883 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 977880011884 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 977880011885 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880011886 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880011887 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 977880011888 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 977880011889 catalytic loop [active] 977880011890 iron binding site [ion binding]; other site 977880011891 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 977880011892 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 977880011893 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880011894 metal binding site [ion binding]; metal-binding site 977880011895 active site 977880011896 I-site; other site 977880011897 Mechanosensitive ion channel; Region: MS_channel; pfam00924 977880011898 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 977880011899 active site 977880011900 nucleophile elbow; other site 977880011901 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 977880011902 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 977880011903 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 977880011904 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880011905 acyl-activating enzyme (AAE) consensus motif; other site 977880011906 AMP binding site [chemical binding]; other site 977880011907 active site 977880011908 CoA binding site [chemical binding]; other site 977880011909 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 977880011910 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 977880011911 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880011912 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880011913 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 977880011914 XapX domain; Region: XapX; TIGR03510 977880011915 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 977880011916 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880011917 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880011918 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880011919 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 977880011920 dimer interface [polypeptide binding]; other site 977880011921 phosphorylation site [posttranslational modification] 977880011922 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 977880011923 ATP binding site [chemical binding]; other site 977880011924 Mg2+ binding site [ion binding]; other site 977880011925 G-X-G motif; other site 977880011926 hypothetical protein; Provisional; Region: PRK07179 977880011927 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 977880011928 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 977880011929 catalytic residue [active] 977880011930 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880011931 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880011932 active site 977880011933 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880011934 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 977880011935 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880011936 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880011937 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880011938 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880011939 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 977880011940 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 977880011941 substrate binding pocket [chemical binding]; other site 977880011942 membrane-bound complex binding site; other site 977880011943 hinge residues; other site 977880011944 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 977880011945 N-acetyl-D-glucosamine binding site [chemical binding]; other site 977880011946 catalytic residue [active] 977880011947 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 977880011948 hydroxyglutarate oxidase; Provisional; Region: PRK11728 977880011949 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 977880011950 N-terminal plug; other site 977880011951 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 977880011952 ligand-binding site [chemical binding]; other site 977880011953 BNR repeat-like domain; Region: BNR_2; pfam13088 977880011954 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 977880011955 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 977880011956 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 977880011957 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880011958 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880011959 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 977880011960 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880011961 DNA-binding site [nucleotide binding]; DNA binding site 977880011962 UTRA domain; Region: UTRA; pfam07702 977880011963 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 977880011964 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 977880011965 active site 977880011966 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880011967 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880011968 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 977880011969 putative effector binding pocket; other site 977880011970 putative dimerization interface [polypeptide binding]; other site 977880011971 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 977880011972 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 977880011973 putative NAD(P) binding site [chemical binding]; other site 977880011974 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 977880011975 hypothetical protein; Provisional; Region: PRK09040 977880011976 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 977880011977 ligand binding site [chemical binding]; other site 977880011978 Domain of unknown function (DUF802); Region: DUF802; pfam05650 977880011979 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 977880011980 Uncharacterized conserved protein [Function unknown]; Region: COG5361 977880011981 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 977880011982 Uncharacterized conserved protein [Function unknown]; Region: COG5361 977880011983 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 977880011984 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 977880011985 dimer interface [polypeptide binding]; other site 977880011986 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880011987 ligand binding site [chemical binding]; other site 977880011988 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 977880011989 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 977880011990 substrate binding pocket [chemical binding]; other site 977880011991 membrane-bound complex binding site; other site 977880011992 hinge residues; other site 977880011993 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 977880011994 Phosphoesterase family; Region: Phosphoesterase; pfam04185 977880011995 Domain of unknown function (DUF756); Region: DUF756; pfam05506 977880011996 Domain of unknown function (DUF756); Region: DUF756; pfam05506 977880011997 hydroperoxidase II; Provisional; Region: katE; PRK11249 977880011998 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 977880011999 tetramer interface [polypeptide binding]; other site 977880012000 heme binding pocket [chemical binding]; other site 977880012001 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 977880012002 domain interactions; other site 977880012003 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 977880012004 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 977880012005 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 977880012006 dimerization interface [polypeptide binding]; other site 977880012007 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880012008 dimer interface [polypeptide binding]; other site 977880012009 putative CheW interface [polypeptide binding]; other site 977880012010 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 977880012011 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 977880012012 tetramer interface [polypeptide binding]; other site 977880012013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880012014 catalytic residue [active] 977880012015 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 977880012016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880012017 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 977880012018 dimerization interface [polypeptide binding]; other site 977880012019 substrate binding pocket [chemical binding]; other site 977880012020 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880012021 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880012022 active site 977880012023 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880012024 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880012025 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 977880012026 membrane-bound complex binding site; other site 977880012027 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 977880012028 hypothetical protein; Reviewed; Region: PRK09588 977880012029 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880012030 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 977880012031 active site 977880012032 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 977880012033 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 977880012034 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 977880012035 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 977880012036 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880012037 MarR family; Region: MarR; pfam01047 977880012038 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 977880012039 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 977880012040 dimerization interface [polypeptide binding]; other site 977880012041 active site 977880012042 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 977880012043 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 977880012044 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 977880012045 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 977880012046 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 977880012047 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 977880012048 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 977880012049 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 977880012050 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 977880012051 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 977880012052 substrate binding site [chemical binding]; other site 977880012053 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 977880012054 substrate binding site [chemical binding]; other site 977880012055 ligand binding site [chemical binding]; other site 977880012056 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 977880012057 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 977880012058 C-terminal domain interface [polypeptide binding]; other site 977880012059 GSH binding site (G-site) [chemical binding]; other site 977880012060 dimer interface [polypeptide binding]; other site 977880012061 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 977880012062 dimer interface [polypeptide binding]; other site 977880012063 N-terminal domain interface [polypeptide binding]; other site 977880012064 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 977880012065 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 977880012066 Methyltransferase domain; Region: Methyltransf_23; pfam13489 977880012067 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 977880012068 S-adenosylmethionine binding site [chemical binding]; other site 977880012069 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 977880012070 oligomeric interface; other site 977880012071 putative active site [active] 977880012072 homodimer interface [polypeptide binding]; other site 977880012073 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 977880012074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880012075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880012076 LysR substrate binding domain; Region: LysR_substrate; pfam03466 977880012077 dimerization interface [polypeptide binding]; other site 977880012078 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880012079 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880012080 active site 977880012081 Outer membrane efflux protein; Region: OEP; pfam02321 977880012082 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 977880012083 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 977880012084 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 977880012085 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880012086 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 977880012087 CsbD-like; Region: CsbD; cl17424 977880012088 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 977880012089 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880012090 DNA-binding site [nucleotide binding]; DNA binding site 977880012091 UTRA domain; Region: UTRA; cl17743 977880012092 hypothetical protein; Validated; Region: PRK07586 977880012093 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 977880012094 PYR/PP interface [polypeptide binding]; other site 977880012095 dimer interface [polypeptide binding]; other site 977880012096 TPP binding site [chemical binding]; other site 977880012097 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 977880012098 TPP-binding site [chemical binding]; other site 977880012099 dimer interface [polypeptide binding]; other site 977880012100 aromatic amino acid exporter; Provisional; Region: PRK11689 977880012101 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 977880012102 active site 977880012103 phosphorylation site [posttranslational modification] 977880012104 intermolecular recognition site; other site 977880012105 dimerization interface [polypeptide binding]; other site 977880012106 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880012107 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 977880012108 trimer interface [polypeptide binding]; other site 977880012109 eyelet of channel; other site 977880012110 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 977880012111 Transmembrane secretion effector; Region: MFS_3; pfam05977 977880012112 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880012113 putative substrate translocation pore; other site 977880012114 Predicted membrane protein [Function unknown]; Region: COG2259 977880012115 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 977880012116 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 977880012117 active site 977880012118 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880012119 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 977880012120 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 977880012121 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 977880012122 Isochorismatase family; Region: Isochorismatase; pfam00857 977880012123 catalytic triad [active] 977880012124 dimer interface [polypeptide binding]; other site 977880012125 conserved cis-peptide bond; other site 977880012126 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 977880012127 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 977880012128 active site 977880012129 phosphorylation site [posttranslational modification] 977880012130 intermolecular recognition site; other site 977880012131 dimerization interface [polypeptide binding]; other site 977880012132 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 977880012133 DNA binding residues [nucleotide binding] 977880012134 dimerization interface [polypeptide binding]; other site 977880012135 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 977880012136 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 977880012137 substrate binding site [chemical binding]; other site 977880012138 activation loop (A-loop); other site 977880012139 AAA ATPase domain; Region: AAA_16; pfam13191 977880012140 Predicted ATPase [General function prediction only]; Region: COG3899 977880012141 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 977880012142 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 977880012143 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880012144 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 977880012145 ATP binding site [chemical binding]; other site 977880012146 Mg2+ binding site [ion binding]; other site 977880012147 G-X-G motif; other site 977880012148 Survival protein SurE; Region: SurE; pfam01975 977880012149 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 977880012150 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 977880012151 active site 977880012152 catalytic residues [active] 977880012153 metal binding site [ion binding]; metal-binding site 977880012154 DmpG-like communication domain; Region: DmpG_comm; pfam07836 977880012155 acetaldehyde dehydrogenase; Validated; Region: PRK08300 977880012156 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 977880012157 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 977880012158 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 977880012159 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 977880012160 short chain dehydrogenase; Provisional; Region: PRK07856 977880012161 classical (c) SDRs; Region: SDR_c; cd05233 977880012162 NAD(P) binding site [chemical binding]; other site 977880012163 active site 977880012164 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 977880012165 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 977880012166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880012167 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 977880012168 NAD(P) binding site [chemical binding]; other site 977880012169 active site 977880012170 ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon; Region: ketosteroid_isomerase; cd00781 977880012171 dimer interface [polypeptide binding]; other site 977880012172 active site/substrate binding site [active] 977880012173 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880012174 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 977880012175 putative hydrophobic ligand binding site [chemical binding]; other site 977880012176 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 977880012177 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880012178 Predicted acyl esterases [General function prediction only]; Region: COG2936 977880012179 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 977880012180 fumarylacetoacetase; Region: PLN02856 977880012181 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 977880012182 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 977880012183 Putative cyclase; Region: Cyclase; pfam04199 977880012184 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880012185 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880012186 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 977880012187 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 977880012188 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 977880012189 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 977880012190 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 977880012191 Walker A motif; other site 977880012192 ATP binding site [chemical binding]; other site 977880012193 Walker B motif; other site 977880012194 arginine finger; other site 977880012195 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880012196 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880012197 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 977880012198 dimerization interface [polypeptide binding]; other site 977880012199 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 977880012200 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 977880012201 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880012202 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880012203 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 977880012204 non-specific DNA binding site [nucleotide binding]; other site 977880012205 salt bridge; other site 977880012206 sequence-specific DNA binding site [nucleotide binding]; other site 977880012207 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 977880012208 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 977880012209 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 977880012210 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 977880012211 motif II; other site 977880012212 glutathionine S-transferase; Provisional; Region: PRK10542 977880012213 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 977880012214 C-terminal domain interface [polypeptide binding]; other site 977880012215 GSH binding site (G-site) [chemical binding]; other site 977880012216 dimer interface [polypeptide binding]; other site 977880012217 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 977880012218 dimer interface [polypeptide binding]; other site 977880012219 N-terminal domain interface [polypeptide binding]; other site 977880012220 substrate binding pocket (H-site) [chemical binding]; other site 977880012221 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 977880012222 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 977880012223 NAD binding site [chemical binding]; other site 977880012224 catalytic Zn binding site [ion binding]; other site 977880012225 structural Zn binding site [ion binding]; other site 977880012226 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 977880012227 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 977880012228 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 977880012229 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 977880012230 similar to coenzyme Pyrroloquinoline quinone (PQQ) synthesis protein A, precursor; Evidence 2b : Function of strongly homologous gene; PubMedId : 11111029; Product type f : factor 977880012231 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 977880012232 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 977880012233 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 977880012234 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 977880012235 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 977880012236 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 977880012237 FeS/SAM binding site; other site 977880012238 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 977880012239 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 977880012240 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 977880012241 putative active site [active] 977880012242 Zn binding site [ion binding]; other site 977880012243 aldolase II superfamily protein; Provisional; Region: PRK07044 977880012244 intersubunit interface [polypeptide binding]; other site 977880012245 active site 977880012246 Zn2+ binding site [ion binding]; other site 977880012247 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880012248 D-galactonate transporter; Region: 2A0114; TIGR00893 977880012249 putative substrate translocation pore; other site 977880012250 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 977880012251 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 977880012252 ligand binding site [chemical binding]; other site 977880012253 flexible hinge region; other site 977880012254 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; cl17320 977880012255 short chain dehydrogenase; Validated; Region: PRK07069 977880012256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880012257 NAD(P) binding site [chemical binding]; other site 977880012258 active site 977880012259 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 977880012260 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 977880012261 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880012262 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880012263 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880012264 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880012265 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 977880012266 dimerization interface [polypeptide binding]; other site 977880012267 substrate binding pocket [chemical binding]; other site 977880012268 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 977880012269 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 977880012270 Old yellow enzyme (OYE)-related FMN binding domain, group 2. 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_2_FMN; cd04733 977880012271 putative active site [active] 977880012272 putative FMN binding site [chemical binding]; other site 977880012273 putative substrate binding site [chemical binding]; other site 977880012274 putative catalytic residue [active] 977880012275 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880012276 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 977880012277 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 977880012278 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 977880012279 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 977880012280 DNA binding residues [nucleotide binding] 977880012281 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 977880012282 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 977880012283 catalytic loop [active] 977880012284 iron binding site [ion binding]; other site 977880012285 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 977880012286 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 977880012287 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880012288 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 977880012289 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880012290 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880012291 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 977880012292 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 977880012293 catalytic residues [active] 977880012294 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 977880012295 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880012296 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880012297 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 977880012298 putative active site [active] 977880012299 putative catalytic site [active] 977880012300 poly(R)-hydroxyalkanoic acid synthase, class II; Region: PHA_synth_II; TIGR01839 977880012301 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 977880012302 Phasin protein; Region: Phasin_2; cl11491 977880012303 poly(3-hydroxyalkanoate) depolymerase; Region: PHA_depoly_arom; TIGR02240 977880012304 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 977880012305 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 977880012306 HSP70 interaction site [polypeptide binding]; other site 977880012307 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880012308 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 977880012309 DNA binding residues [nucleotide binding] 977880012310 dimerization interface [polypeptide binding]; other site 977880012311 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 977880012312 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 977880012313 CysD dimerization site [polypeptide binding]; other site 977880012314 G1 box; other site 977880012315 putative GEF interaction site [polypeptide binding]; other site 977880012316 GTP/Mg2+ binding site [chemical binding]; other site 977880012317 Switch I region; other site 977880012318 G2 box; other site 977880012319 G3 box; other site 977880012320 Switch II region; other site 977880012321 G4 box; other site 977880012322 G5 box; other site 977880012323 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 977880012324 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 977880012325 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 977880012326 ligand-binding site [chemical binding]; other site 977880012327 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 977880012328 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 977880012329 Active Sites [active] 977880012330 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 977880012331 short chain dehydrogenase; Provisional; Region: PRK07890 977880012332 classical (c) SDRs; Region: SDR_c; cd05233 977880012333 NAD(P) binding site [chemical binding]; other site 977880012334 active site 977880012335 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 977880012336 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 977880012337 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 977880012338 dimerization interface [polypeptide binding]; other site 977880012339 active site 977880012340 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 977880012341 classical (c) SDRs; Region: SDR_c; cd05233 977880012342 NAD(P) binding site [chemical binding]; other site 977880012343 active site 977880012344 PAS fold; Region: PAS; pfam00989 977880012345 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880012346 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 977880012347 DNA binding residues [nucleotide binding] 977880012348 dimerization interface [polypeptide binding]; other site 977880012349 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 977880012350 active site 977880012351 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 977880012352 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 977880012353 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880012354 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 977880012355 Flavin binding site [chemical binding]; other site 977880012356 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 977880012357 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 977880012358 L-aspartate oxidase; Provisional; Region: PRK06175 977880012359 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 977880012360 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 977880012361 hypothetical protein; Validated; Region: PRK07121 977880012362 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 977880012363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880012364 short chain dehydrogenase; Validated; Region: PRK07069 977880012365 NAD(P) binding site [chemical binding]; other site 977880012366 active site 977880012367 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 977880012368 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 977880012369 FAD binding pocket [chemical binding]; other site 977880012370 FAD binding motif [chemical binding]; other site 977880012371 phosphate binding motif [ion binding]; other site 977880012372 beta-alpha-beta structure motif; other site 977880012373 NAD(p) ribose binding residues [chemical binding]; other site 977880012374 NAD binding pocket [chemical binding]; other site 977880012375 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 977880012376 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 977880012377 catalytic loop [active] 977880012378 iron binding site [ion binding]; other site 977880012379 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 977880012380 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880012381 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 977880012382 acyl-activating enzyme (AAE) consensus motif; other site 977880012383 acyl-activating enzyme (AAE) consensus motif; other site 977880012384 putative AMP binding site [chemical binding]; other site 977880012385 putative active site [active] 977880012386 putative CoA binding site [chemical binding]; other site 977880012387 CoA binding site [chemical binding]; other site 977880012388 SnoaL-like domain; Region: SnoaL_4; pfam13577 977880012389 short chain dehydrogenase; Provisional; Region: PRK08303 977880012390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880012391 NAD(P) binding site [chemical binding]; other site 977880012392 active site 977880012393 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 977880012394 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 977880012395 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 977880012396 active site 977880012397 Fe binding site [ion binding]; other site 977880012398 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 977880012399 Coenzyme A transferase; Region: CoA_trans; cl17247 977880012400 enoyl-CoA hydratase; Provisional; Region: PRK08290 977880012401 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 977880012402 substrate binding site [chemical binding]; other site 977880012403 oxyanion hole (OAH) forming residues; other site 977880012404 trimer interface [polypeptide binding]; other site 977880012405 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 977880012406 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 977880012407 FMN binding site [chemical binding]; other site 977880012408 substrate binding site [chemical binding]; other site 977880012409 putative catalytic residue [active] 977880012410 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 977880012411 enoyl-CoA hydratase; Provisional; Region: PRK06495 977880012412 substrate binding site [chemical binding]; other site 977880012413 oxyanion hole (OAH) forming residues; other site 977880012414 trimer interface [polypeptide binding]; other site 977880012415 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880012416 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 977880012417 FAD binding site [chemical binding]; other site 977880012418 substrate binding site [chemical binding]; other site 977880012419 catalytic base [active] 977880012420 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 977880012421 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880012422 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880012423 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 977880012424 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 977880012425 dimer interface [polypeptide binding]; other site 977880012426 active site 977880012427 short chain dehydrogenase; Provisional; Region: PRK07791 977880012428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880012429 NAD(P) binding site [chemical binding]; other site 977880012430 active site 977880012431 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880012432 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 977880012433 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880012434 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880012435 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880012436 active site 977880012437 short chain dehydrogenase; Provisional; Region: PRK07831 977880012438 classical (c) SDRs; Region: SDR_c; cd05233 977880012439 NAD(P) binding site [chemical binding]; other site 977880012440 active site 977880012441 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 977880012442 putative active site [active] 977880012443 putative catalytic site [active] 977880012444 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 977880012445 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 977880012446 dimer interface [polypeptide binding]; other site 977880012447 active site 977880012448 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 977880012449 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 977880012450 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 977880012451 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 977880012452 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_family; cd02803 977880012453 active site 977880012454 FMN binding site [chemical binding]; other site 977880012455 substrate binding site [chemical binding]; other site 977880012456 putative catalytic residue [active] 977880012457 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 977880012458 The alignment model represents the N-terminal rieske iron-sulfur domain of KshA, the oxygenase component of 3-ketosteroid 9-alpha-hydroxylase (KSH). The terminal oxygenase component of KSH is a key enzyme in the microbial steroid degradation pathway; Region: Rieske_RO_Alpha_KSH; cd03531 977880012459 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 977880012460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880012461 NAD(P) binding site [chemical binding]; other site 977880012462 active site 977880012463 PAS domain; Region: PAS_9; pfam13426 977880012464 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880012465 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 977880012466 DNA binding residues [nucleotide binding] 977880012467 dimerization interface [polypeptide binding]; other site 977880012468 Uncharacterized conserved protein [Function unknown]; Region: COG5361 977880012469 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 977880012470 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 977880012471 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 977880012472 Sulfatase; Region: Sulfatase; pfam00884 977880012473 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 977880012474 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 977880012475 FeS/SAM binding site; other site 977880012476 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 977880012477 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 977880012478 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 977880012479 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 977880012480 active site 977880012481 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 977880012482 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 977880012483 FAD binding site [chemical binding]; other site 977880012484 substrate binding site [chemical binding]; other site 977880012485 catalytic base [active] 977880012486 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 977880012487 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880012488 acyl-activating enzyme (AAE) consensus motif; other site 977880012489 AMP binding site [chemical binding]; other site 977880012490 active site 977880012491 CoA binding site [chemical binding]; other site 977880012492 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880012493 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 977880012494 Uncharacterized conserved protein [Function unknown]; Region: COG3777 977880012495 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 977880012496 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 977880012497 active site 2 [active] 977880012498 active site 1 [active] 977880012499 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 977880012500 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 977880012501 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880012502 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880012503 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880012504 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880012505 active site 977880012506 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 977880012507 MgtC family; Region: MgtC; pfam02308 977880012508 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 977880012509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880012510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880012511 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 977880012512 putative dimerization interface [polypeptide binding]; other site 977880012513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880012514 NAD(P) binding site [chemical binding]; other site 977880012515 short chain dehydrogenase; Provisional; Region: PRK07060 977880012516 active site 977880012517 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880012518 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880012519 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 977880012520 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880012521 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880012522 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880012523 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 977880012524 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880012525 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 977880012526 acyl-activating enzyme (AAE) consensus motif; other site 977880012527 putative AMP binding site [chemical binding]; other site 977880012528 putative active site [active] 977880012529 putative CoA binding site [chemical binding]; other site 977880012530 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880012531 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 977880012532 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 977880012533 substrate binding site [chemical binding]; other site 977880012534 oxyanion hole (OAH) forming residues; other site 977880012535 trimer interface [polypeptide binding]; other site 977880012536 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880012537 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880012538 active site 977880012539 PrkA family serine protein kinase; Provisional; Region: PRK15455 977880012540 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 977880012541 hypothetical protein; Provisional; Region: PRK05325 977880012542 SpoVR family protein; Provisional; Region: PRK11767 977880012543 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 977880012544 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880012545 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880012546 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880012547 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 977880012548 active site 977880012549 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 977880012550 active site 2 [active] 977880012551 active site 1 [active] 977880012552 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880012553 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880012554 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 977880012555 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880012556 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 977880012557 dimerization interface [polypeptide binding]; other site 977880012558 substrate binding pocket [chemical binding]; other site 977880012559 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880012560 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 977880012561 DNA binding residues [nucleotide binding] 977880012562 dimerization interface [polypeptide binding]; other site 977880012563 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 977880012564 Mechanosensitive ion channel; Region: MS_channel; pfam00924 977880012565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880012566 NAD(P) binding site [chemical binding]; other site 977880012567 active site 977880012568 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 977880012569 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880012570 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 977880012571 acyl-activating enzyme (AAE) consensus motif; other site 977880012572 putative AMP binding site [chemical binding]; other site 977880012573 putative active site [active] 977880012574 putative CoA binding site [chemical binding]; other site 977880012575 Predicted membrane protein [Function unknown]; Region: COG2323 977880012576 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880012577 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 977880012578 trimer interface [polypeptide binding]; other site 977880012579 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880012580 eyelet of channel; other site 977880012581 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880012582 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 977880012583 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 977880012584 [2Fe-2S] cluster binding site [ion binding]; other site 977880012585 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 977880012586 hydrophobic ligand binding site; other site 977880012587 short chain dehydrogenase; Provisional; Region: PRK12939 977880012588 classical (c) SDRs; Region: SDR_c; cd05233 977880012589 NAD(P) binding site [chemical binding]; other site 977880012590 active site 977880012591 Cupin domain; Region: Cupin_2; pfam07883 977880012592 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880012593 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 977880012594 putative DNA binding site [nucleotide binding]; other site 977880012595 putative Zn2+ binding site [ion binding]; other site 977880012596 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880012597 short chain dehydrogenase; Provisional; Region: PRK07062 977880012598 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 977880012599 putative NAD(P) binding site [chemical binding]; other site 977880012600 putative active site [active] 977880012601 hypothetical protein; Provisional; Region: PRK07064 977880012602 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 977880012603 PYR/PP interface [polypeptide binding]; other site 977880012604 dimer interface [polypeptide binding]; other site 977880012605 TPP binding site [chemical binding]; other site 977880012606 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 977880012607 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 977880012608 TPP-binding site [chemical binding]; other site 977880012609 L-aspartate dehydrogenase; Provisional; Region: PRK13303 977880012610 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 977880012611 Domain of unknown function DUF108; Region: DUF108; pfam01958 977880012612 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 977880012613 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 977880012614 NAD(P) binding site [chemical binding]; other site 977880012615 catalytic residues [active] 977880012616 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 977880012617 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880012618 putative active site [active] 977880012619 putative metal binding site [ion binding]; other site 977880012620 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 977880012621 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 977880012622 FMN-binding pocket [chemical binding]; other site 977880012623 flavin binding motif; other site 977880012624 phosphate binding motif [ion binding]; other site 977880012625 beta-alpha-beta structure motif; other site 977880012626 NAD binding pocket [chemical binding]; other site 977880012627 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 977880012628 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 977880012629 catalytic loop [active] 977880012630 iron binding site [ion binding]; other site 977880012631 benzoate transport; Region: 2A0115; TIGR00895 977880012632 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880012633 putative substrate translocation pore; other site 977880012634 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880012635 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 977880012636 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 977880012637 putative ligand binding site [chemical binding]; other site 977880012638 MarR family; Region: MarR_2; cl17246 977880012639 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880012640 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880012641 4-hydroxybenzoyl-CoA reductase, alpha subunit; Region: 4hydrxCoA_A; TIGR03194 977880012642 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 977880012643 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880012644 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 977880012645 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 977880012646 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 977880012647 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 977880012648 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 977880012649 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 977880012650 putative hydrophobic ligand binding site [chemical binding]; other site 977880012651 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880012652 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 977880012653 dimerization interface [polypeptide binding]; other site 977880012654 putative Zn2+ binding site [ion binding]; other site 977880012655 putative DNA binding site [nucleotide binding]; other site 977880012656 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880012657 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880012658 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880012659 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 977880012660 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880012661 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 977880012662 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 977880012663 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880012664 active site 977880012665 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 977880012666 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 977880012667 active site 977880012668 acyl-CoA synthetase; Provisional; Region: PRK13391 977880012669 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880012670 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 977880012671 acyl-activating enzyme (AAE) consensus motif; other site 977880012672 acyl-activating enzyme (AAE) consensus motif; other site 977880012673 putative AMP binding site [chemical binding]; other site 977880012674 putative active site [active] 977880012675 putative CoA binding site [chemical binding]; other site 977880012676 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 977880012677 AAA ATPase domain; Region: AAA_16; pfam13191 977880012678 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 977880012679 DNA binding residues [nucleotide binding] 977880012680 dimerization interface [polypeptide binding]; other site 977880012681 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 977880012682 putative FMN binding site [chemical binding]; other site 977880012683 enoyl-CoA hydratase; Provisional; Region: PRK08260 977880012684 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 977880012685 substrate binding site [chemical binding]; other site 977880012686 oxyanion hole (OAH) forming residues; other site 977880012687 trimer interface [polypeptide binding]; other site 977880012688 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 977880012689 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 977880012690 FMN binding site [chemical binding]; other site 977880012691 substrate binding site [chemical binding]; other site 977880012692 putative catalytic residue [active] 977880012693 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 977880012694 CoenzymeA binding site [chemical binding]; other site 977880012695 subunit interaction site [polypeptide binding]; other site 977880012696 PHB binding site; other site 977880012697 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 977880012698 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 977880012699 dimer interface [polypeptide binding]; other site 977880012700 active site 977880012701 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 977880012702 catalytic core [active] 977880012703 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880012704 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 977880012705 putative effector binding pocket; other site 977880012706 putative dimerization interface [polypeptide binding]; other site 977880012707 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 977880012708 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 977880012709 putative C-terminal domain interface [polypeptide binding]; other site 977880012710 putative GSH binding site (G-site) [chemical binding]; other site 977880012711 putative dimer interface [polypeptide binding]; other site 977880012712 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 977880012713 N-terminal domain interface [polypeptide binding]; other site 977880012714 dimer interface [polypeptide binding]; other site 977880012715 substrate binding pocket (H-site) [chemical binding]; other site 977880012716 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 977880012717 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 977880012718 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 977880012719 active site 977880012720 catalytic site [active] 977880012721 substrate binding site [chemical binding]; other site 977880012722 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 977880012723 GIY-YIG motif/motif A; other site 977880012724 active site 977880012725 catalytic site [active] 977880012726 putative DNA binding site [nucleotide binding]; other site 977880012727 metal binding site [ion binding]; metal-binding site 977880012728 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 977880012729 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880012730 putative substrate translocation pore; other site 977880012731 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880012732 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 977880012733 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 977880012734 [4Fe-4S] binding site [ion binding]; other site 977880012735 molybdopterin cofactor binding site; other site 977880012736 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 977880012737 molybdopterin cofactor binding site; other site 977880012738 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 977880012739 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 977880012740 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 977880012741 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 977880012742 nitrite reductase subunit NirD; Provisional; Region: PRK14989 977880012743 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880012744 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 977880012745 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 977880012746 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 977880012747 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 977880012748 Predicted transcriptional regulators [Transcription]; Region: COG1733 977880012749 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 977880012750 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880012751 Coenzyme A binding pocket [chemical binding]; other site 977880012752 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 977880012753 EamA-like transporter family; Region: EamA; pfam00892 977880012754 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 977880012755 metal binding site 2 [ion binding]; metal-binding site 977880012756 putative DNA binding helix; other site 977880012757 metal binding site 1 [ion binding]; metal-binding site 977880012758 dimer interface [polypeptide binding]; other site 977880012759 structural Zn2+ binding site [ion binding]; other site 977880012760 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 977880012761 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 977880012762 N-terminal plug; other site 977880012763 ligand-binding site [chemical binding]; other site 977880012764 Predicted membrane protein [Function unknown]; Region: COG3503 977880012765 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 977880012766 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 977880012767 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 977880012768 DXD motif; other site 977880012769 PilZ domain; Region: PilZ; pfam07238 977880012770 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 977880012771 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880012772 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 977880012773 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 977880012774 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 977880012775 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 977880012776 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 977880012777 putative active site [active] 977880012778 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 977880012779 nucleoside/Zn binding site; other site 977880012780 dimer interface [polypeptide binding]; other site 977880012781 catalytic motif [active] 977880012782 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 977880012783 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 977880012784 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 977880012785 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880012786 MarR family; Region: MarR_2; cl17246 977880012787 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 977880012788 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15528538, 16461648; Product type e : enzyme 977880012789 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16481623; Product type pe : enzyme 977880012790 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 977880012791 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 977880012792 sequence-specific DNA binding site [nucleotide binding]; other site 977880012793 salt bridge; other site 977880012794 Cupin domain; Region: Cupin_2; cl17218 977880012795 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 977880012796 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 977880012797 substrate-cofactor binding pocket; other site 977880012798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880012799 catalytic residue [active] 977880012800 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 977880012801 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880012802 NAD(P) binding site [chemical binding]; other site 977880012803 active site 977880012804 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 977880012805 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 977880012806 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 977880012807 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 977880012808 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 977880012809 catalytic residues [active] 977880012810 central insert; other site 977880012811 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 977880012812 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 977880012813 heme exporter protein CcmC; Region: ccmC; TIGR01191 977880012814 CcmB protein; Region: CcmB; cl17444 977880012815 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 977880012816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880012817 Walker A/P-loop; other site 977880012818 ATP binding site [chemical binding]; other site 977880012819 Q-loop/lid; other site 977880012820 ABC transporter signature motif; other site 977880012821 Walker B; other site 977880012822 D-loop; other site 977880012823 H-loop/switch region; other site 977880012824 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 977880012825 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 977880012826 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 977880012827 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 977880012828 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 977880012829 [4Fe-4S] binding site [ion binding]; other site 977880012830 molybdopterin cofactor binding site; other site 977880012831 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 977880012832 molybdopterin cofactor binding site; other site 977880012833 NapD protein; Region: NapD; pfam03927 977880012834 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 977880012835 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 977880012836 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 977880012837 ligand binding site [chemical binding]; other site 977880012838 NAD binding site [chemical binding]; other site 977880012839 tetramer interface [polypeptide binding]; other site 977880012840 catalytic site [active] 977880012841 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 977880012842 L-serine binding site [chemical binding]; other site 977880012843 ACT domain interface; other site 977880012844 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 977880012845 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 977880012846 N-terminal plug; other site 977880012847 ligand-binding site [chemical binding]; other site 977880012848 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880012849 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 977880012850 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880012851 Walker A/P-loop; other site 977880012852 ATP binding site [chemical binding]; other site 977880012853 Q-loop/lid; other site 977880012854 ABC transporter signature motif; other site 977880012855 Walker B; other site 977880012856 D-loop; other site 977880012857 H-loop/switch region; other site 977880012858 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 977880012859 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 977880012860 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 977880012861 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 977880012862 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 977880012863 ligand binding site [chemical binding]; other site 977880012864 ABC-2 type transporter; Region: ABC2_membrane; cl17235 977880012865 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 977880012866 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 977880012867 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 977880012868 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 977880012869 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 977880012870 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 977880012871 dimer interface [polypeptide binding]; other site 977880012872 Trp docking motif [polypeptide binding]; other site 977880012873 active site 977880012874 Cytochrome c; Region: Cytochrom_C; cl11414 977880012875 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 977880012876 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 977880012877 FeS/SAM binding site; other site 977880012878 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 977880012879 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 977880012880 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 977880012881 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 977880012882 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 977880012883 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 977880012884 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 977880012885 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 977880012886 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 977880012887 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 977880012888 Walker A motif; other site 977880012889 ATP binding site [chemical binding]; other site 977880012890 Walker B motif; other site 977880012891 arginine finger; other site 977880012892 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880012893 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 977880012894 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 977880012895 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 977880012896 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880012897 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 977880012898 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 977880012899 dimerization interface [polypeptide binding]; other site 977880012900 Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP); Region: HEPD; cd08182 977880012901 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 977880012902 putative active site [active] 977880012903 metal binding site [ion binding]; metal-binding site 977880012904 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 977880012905 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880012906 putative substrate translocation pore; other site 977880012907 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 977880012908 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 977880012909 NAD(P) binding site [chemical binding]; other site 977880012910 catalytic residues [active] 977880012911 Evidence 4 : Homologs of previously reported genes of unknown function 977880012912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 977880012913 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 977880012914 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 977880012915 active site 977880012916 nucleophile elbow; other site 977880012917 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 977880012918 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 977880012919 dimer interface [polypeptide binding]; other site 977880012920 acyl-activating enzyme (AAE) consensus motif; other site 977880012921 putative active site [active] 977880012922 AMP binding site [chemical binding]; other site 977880012923 putative CoA binding site [chemical binding]; other site 977880012924 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 977880012925 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 977880012926 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 977880012927 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 977880012928 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880012929 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880012930 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880012931 D-galactonate transporter; Region: 2A0114; TIGR00893 977880012932 putative substrate translocation pore; other site 977880012933 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 977880012934 Evidence 7 : Gene remnant 977880012935 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 977880012936 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 977880012937 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 977880012938 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880012939 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 977880012940 dimerization interface [polypeptide binding]; other site 977880012941 substrate binding pocket [chemical binding]; other site 977880012942 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 977880012943 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 977880012944 ligand binding site [chemical binding]; other site 977880012945 flexible hinge region; other site 977880012946 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 977880012947 putative switch regulator; other site 977880012948 non-specific DNA interactions [nucleotide binding]; other site 977880012949 DNA binding site [nucleotide binding] 977880012950 sequence specific DNA binding site [nucleotide binding]; other site 977880012951 putative cAMP binding site [chemical binding]; other site 977880012952 aldolase II superfamily protein; Provisional; Region: PRK07044 977880012953 intersubunit interface [polypeptide binding]; other site 977880012954 active site 977880012955 Zn2+ binding site [ion binding]; other site 977880012956 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 977880012957 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 977880012958 putative ligand binding site [chemical binding]; other site 977880012959 NAD binding site [chemical binding]; other site 977880012960 dimerization interface [polypeptide binding]; other site 977880012961 catalytic site [active] 977880012962 PhoD-like phosphatase; Region: PhoD; pfam09423 977880012963 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 977880012964 putative active site [active] 977880012965 putative metal binding site [ion binding]; other site 977880012966 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 977880012967 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880012968 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880012969 putative substrate translocation pore; other site 977880012970 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880012971 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 977880012972 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 977880012973 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 977880012974 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880012975 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 977880012976 dimerization interface [polypeptide binding]; other site 977880012977 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880012978 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880012979 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 977880012980 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 977880012981 substrate binding site [chemical binding]; other site 977880012982 oxyanion hole (OAH) forming residues; other site 977880012983 trimer interface [polypeptide binding]; other site 977880012984 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880012985 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 977880012986 active site 977880012987 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 977880012988 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 977880012989 active site 977880012990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880012991 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880012992 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 977880012993 eyelet of channel; other site 977880012994 trimer interface [polypeptide binding]; other site 977880012995 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 977880012996 putative hydrophobic ligand binding site [chemical binding]; other site 977880012997 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 977880012998 dimerization interface [polypeptide binding]; other site 977880012999 putative DNA binding site [nucleotide binding]; other site 977880013000 putative Zn2+ binding site [ion binding]; other site 977880013001 Dihaem cytochrome c; Region: DHC; pfam09626 977880013002 Cytochrome c; Region: Cytochrom_C; cl11414 977880013003 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 977880013004 Moco binding site; other site 977880013005 metal coordination site [ion binding]; other site 977880013006 xanthine permease; Region: pbuX; TIGR03173 977880013007 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 977880013008 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 977880013009 active site 977880013010 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 977880013011 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 977880013012 Transposase; Region: DEDD_Tnp_IS110; pfam01548 977880013013 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 977880013014 Transcriptional regulators [Transcription]; Region: PurR; COG1609 977880013015 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 977880013016 DNA binding site [nucleotide binding] 977880013017 domain linker motif; other site 977880013018 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 977880013019 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 977880013020 Beta-lactamase; Region: Beta-lactamase; pfam00144 977880013021 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 977880013022 Isochorismatase family; Region: Isochorismatase; pfam00857 977880013023 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 977880013024 catalytic triad [active] 977880013025 conserved cis-peptide bond; other site 977880013026 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 977880013027 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 977880013028 conserved cys residue [active] 977880013029 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880013030 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 977880013031 active site 977880013032 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 977880013033 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 977880013034 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 977880013035 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880013036 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880013037 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880013038 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880013039 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 977880013040 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 977880013041 active site 977880013042 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 977880013043 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 977880013044 acyl-activating enzyme (AAE) consensus motif; other site 977880013045 putative AMP binding site [chemical binding]; other site 977880013046 putative active site [active] 977880013047 putative CoA binding site [chemical binding]; other site 977880013048 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880013049 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880013050 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 977880013051 dimerization interface [polypeptide binding]; other site 977880013052 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 977880013053 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 977880013054 putative acyl-acceptor binding pocket; other site 977880013055 transcriptional activator FlhC; Provisional; Region: PRK12860 977880013056 BON domain; Region: BON; cl02771 977880013057 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 977880013058 classical (c) SDRs; Region: SDR_c; cd05233 977880013059 NAD(P) binding site [chemical binding]; other site 977880013060 active site 977880013061 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 977880013062 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 977880013063 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880013064 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880013065 Uncharacterized conserved protein [Function unknown]; Region: COG5361 977880013066 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 977880013067 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 977880013068 Uncharacterized conserved protein [Function unknown]; Region: COG5361 977880013069 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 977880013070 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 977880013071 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 977880013072 CoA binding domain; Region: CoA_binding_2; pfam13380 977880013073 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 977880013074 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 977880013075 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 977880013076 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880013077 DNA-binding site [nucleotide binding]; DNA binding site 977880013078 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 977880013079 Protein of unknown function (DUF2880); Region: DUF2880; pfam11082 977880013080 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 977880013081 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 977880013082 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 977880013083 putative active site [active] 977880013084 catalytic site [active] 977880013085 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 977880013086 putative active site [active] 977880013087 catalytic site [active] 977880013088 Uncharacterized conserved protein [Function unknown]; Region: COG0398 977880013089 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 977880013090 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 977880013091 Predicted small secreted protein [Function unknown]; Region: COG5510 977880013092 Cupin; Region: Cupin_6; pfam12852 977880013093 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880013094 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880013095 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880013096 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880013097 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 977880013098 EamA-like transporter family; Region: EamA; pfam00892 977880013099 tartronate semialdehyde reductase; Provisional; Region: PRK15059 977880013100 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 977880013101 putative dehydrogenase; Provisional; Region: PRK10098 977880013102 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880013103 DNA-binding site [nucleotide binding]; DNA binding site 977880013104 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 977880013105 FCD domain; Region: FCD; pfam07729 977880013106 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 977880013107 homodimer interface [polypeptide binding]; other site 977880013108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880013109 catalytic residue [active] 977880013110 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 977880013111 FAD binding domain; Region: FAD_binding_4; pfam01565 977880013112 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 977880013113 Cysteine-rich domain; Region: CCG; pfam02754 977880013114 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 977880013115 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 977880013116 dimer interface [polypeptide binding]; other site 977880013117 active site 977880013118 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 977880013119 substrate binding site [chemical binding]; other site 977880013120 catalytic residue [active] 977880013121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880013122 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 977880013123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 977880013124 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 977880013125 Transposase, Mutator family; Region: Transposase_mut; pfam00872 977880013126 MULE transposase domain; Region: MULE; pfam10551 977880013127 Putative cyclase; Region: Cyclase; pfam04199 977880013128 galactarate dehydratase; Region: galactar-dH20; TIGR03248 977880013129 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 977880013130 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 977880013131 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 977880013132 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880013133 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880013134 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 977880013135 dimerization interface [polypeptide binding]; other site 977880013136 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880013137 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880013138 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880013139 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880013140 active site 977880013141 ProQ/FINO family; Region: ProQ; pfam04352 977880013142 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 977880013143 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 977880013144 Resolvase, N terminal domain; Region: Resolvase; pfam00239 977880013145 catalytic residues [active] 977880013146 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 977880013147 DNA-binding interface [nucleotide binding]; DNA binding site 977880013148 CheB methylesterase; Region: CheB_methylest; pfam01339 977880013149 CheB methylesterase; Region: CheB_methylest; pfam01339 977880013150 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 977880013151 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 977880013152 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 977880013153 S-adenosylmethionine binding site [chemical binding]; other site 977880013154 PAS domain; Region: PAS_9; pfam13426 977880013155 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 977880013156 PAS domain; Region: PAS_10; pfam13596 977880013157 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 977880013158 putative active site [active] 977880013159 heme pocket [chemical binding]; other site 977880013160 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 977880013161 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 977880013162 putative active site [active] 977880013163 heme pocket [chemical binding]; other site 977880013164 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 977880013165 dimer interface [polypeptide binding]; other site 977880013166 phosphorylation site [posttranslational modification] 977880013167 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 977880013168 ATP binding site [chemical binding]; other site 977880013169 Mg2+ binding site [ion binding]; other site 977880013170 G-X-G motif; other site 977880013171 Response regulator receiver domain; Region: Response_reg; pfam00072 977880013172 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 977880013173 active site 977880013174 phosphorylation site [posttranslational modification] 977880013175 intermolecular recognition site; other site 977880013176 dimerization interface [polypeptide binding]; other site 977880013177 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 977880013178 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 977880013179 dimer interface [polypeptide binding]; other site 977880013180 conserved gate region; other site 977880013181 putative PBP binding loops; other site 977880013182 ABC-ATPase subunit interface; other site 977880013183 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 977880013184 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 977880013185 Walker A/P-loop; other site 977880013186 ATP binding site [chemical binding]; other site 977880013187 Q-loop/lid; other site 977880013188 ABC transporter signature motif; other site 977880013189 Walker B; other site 977880013190 D-loop; other site 977880013191 H-loop/switch region; other site 977880013192 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 977880013193 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 977880013194 substrate binding pocket [chemical binding]; other site 977880013195 membrane-bound complex binding site; other site 977880013196 hinge residues; other site 977880013197 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 977880013198 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 977880013199 membrane-bound complex binding site; other site 977880013200 BCCT family transporter; Region: BCCT; cl00569 977880013201 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880013202 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880013203 enoyl-CoA hydratase; Provisional; Region: PRK05995 977880013204 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 977880013205 substrate binding site [chemical binding]; other site 977880013206 oxyanion hole (OAH) forming residues; other site 977880013207 trimer interface [polypeptide binding]; other site 977880013208 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 977880013209 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 977880013210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880013211 DNA-binding site [nucleotide binding]; DNA binding site 977880013212 UTRA domain; Region: UTRA; pfam07702 977880013213 Cupin domain; Region: Cupin_2; cl17218 977880013214 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880013215 Predicted transcriptional regulators [Transcription]; Region: COG1733 977880013216 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 977880013217 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 977880013218 Transposase; Region: DEDD_Tnp_IS110; pfam01548 977880013219 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 977880013220 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 977880013221 active site 977880013222 homotetramer interface [polypeptide binding]; other site 977880013223 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 977880013224 active site 977880013225 homotetramer interface [polypeptide binding]; other site 977880013226 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880013227 D-galactonate transporter; Region: 2A0114; TIGR00893 977880013228 putative substrate translocation pore; other site 977880013229 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880013230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880013231 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 977880013232 dimerization interface [polypeptide binding]; other site 977880013233 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 977880013234 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 977880013235 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 977880013236 CoenzymeA binding site [chemical binding]; other site 977880013237 subunit interaction site [polypeptide binding]; other site 977880013238 PHB binding site; other site 977880013239 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 977880013240 SurA N-terminal domain; Region: SurA_N; pfam09312 977880013241 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880013242 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880013243 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 977880013244 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 977880013245 NADP binding site [chemical binding]; other site 977880013246 dimer interface [polypeptide binding]; other site 977880013247 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 977880013248 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 977880013249 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 977880013250 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880013251 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880013252 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880013253 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 977880013254 dimerization interface [polypeptide binding]; other site 977880013255 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880013256 D-galactonate transporter; Region: 2A0114; TIGR00893 977880013257 putative substrate translocation pore; other site 977880013258 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 977880013259 Uncharacterized conserved protein [Function unknown]; Region: COG5476 977880013260 MlrC C-terminus; Region: MlrC_C; pfam07171 977880013261 LysE type translocator; Region: LysE; cl00565 977880013262 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 977880013263 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 977880013264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880013265 DNA-binding site [nucleotide binding]; DNA binding site 977880013266 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 977880013267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880013268 homodimer interface [polypeptide binding]; other site 977880013269 catalytic residue [active] 977880013270 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880013271 aminoglycoside resistance protein; Provisional; Region: PRK13746 977880013272 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 977880013273 active site 977880013274 NTP binding site [chemical binding]; other site 977880013275 metal binding triad [ion binding]; metal-binding site 977880013276 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 977880013277 von Willebrand factor type A domain; Region: VWA_2; pfam13519 977880013278 metal ion-dependent adhesion site (MIDAS); other site 977880013279 Protein of unknown function DUF58; Region: DUF58; pfam01882 977880013280 MoxR-like ATPases [General function prediction only]; Region: COG0714 977880013281 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 977880013282 Walker A motif; other site 977880013283 ATP binding site [chemical binding]; other site 977880013284 Walker B motif; other site 977880013285 arginine finger; other site 977880013286 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 977880013287 von Willebrand factor type A domain; Region: VWA_2; pfam13519 977880013288 metal ion-dependent adhesion site (MIDAS); other site 977880013289 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880013290 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 977880013291 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 977880013292 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 977880013293 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 977880013294 ligand binding site [chemical binding]; other site 977880013295 NAD binding site [chemical binding]; other site 977880013296 dimerization interface [polypeptide binding]; other site 977880013297 catalytic site [active] 977880013298 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 977880013299 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880013300 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 977880013301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880013302 DNA-binding site [nucleotide binding]; DNA binding site 977880013303 UTRA domain; Region: UTRA; pfam07702 977880013304 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 977880013305 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 977880013306 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 977880013307 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 977880013308 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880013309 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 977880013310 homotrimer interaction site [polypeptide binding]; other site 977880013311 putative active site [active] 977880013312 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 977880013313 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 977880013314 GDP-binding site [chemical binding]; other site 977880013315 ACT binding site; other site 977880013316 IMP binding site; other site 977880013317 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 977880013318 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880013319 putative substrate translocation pore; other site 977880013320 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 977880013321 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880013322 OsmC-like protein; Region: OsmC; cl00767 977880013323 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 977880013324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880013325 NAD(P) binding site [chemical binding]; other site 977880013326 active site 977880013327 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 977880013328 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 977880013329 conserved cys residue [active] 977880013330 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880013331 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880013332 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880013333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880013334 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 977880013335 putative effector binding pocket; other site 977880013336 dimerization interface [polypeptide binding]; other site 977880013337 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 977880013338 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 977880013339 substrate binding site [chemical binding]; other site 977880013340 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 977880013341 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 977880013342 substrate binding site [chemical binding]; other site 977880013343 ligand binding site [chemical binding]; other site 977880013344 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880013345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880013346 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 977880013347 dimerization interface [polypeptide binding]; other site 977880013348 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880013349 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880013350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880013351 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 977880013352 putative substrate binding pocket [chemical binding]; other site 977880013353 dimerization interface [polypeptide binding]; other site 977880013354 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 977880013355 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 977880013356 dimer interface [polypeptide binding]; other site 977880013357 PYR/PP interface [polypeptide binding]; other site 977880013358 TPP binding site [chemical binding]; other site 977880013359 substrate binding site [chemical binding]; other site 977880013360 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 977880013361 TPP-binding site [chemical binding]; other site 977880013362 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 977880013363 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 977880013364 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 977880013365 putative NAD(P) binding site [chemical binding]; other site 977880013366 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880013367 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 977880013368 NAD(P) binding site [chemical binding]; other site 977880013369 active site 977880013370 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 977880013371 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 977880013372 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 977880013373 DNA-binding site [nucleotide binding]; DNA binding site 977880013374 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880013375 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880013376 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 977880013377 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 977880013378 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 977880013379 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 977880013380 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 977880013381 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 977880013382 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 977880013383 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880013384 EamA-like transporter family; Region: EamA; pfam00892 977880013385 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 977880013386 EamA-like transporter family; Region: EamA; pfam00892 977880013387 HipA N-terminal domain; Region: Couple_hipA; pfam13657 977880013388 HipA-like N-terminal domain; Region: HipA_N; pfam07805 977880013389 HipA-like C-terminal domain; Region: HipA_C; pfam07804 977880013390 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 977880013391 non-specific DNA binding site [nucleotide binding]; other site 977880013392 salt bridge; other site 977880013393 sequence-specific DNA binding site [nucleotide binding]; other site 977880013394 DNA Polymerase Y-family; Region: PolY_like; cd03468 977880013395 active site 977880013396 DNA binding site [nucleotide binding] 977880013397 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 977880013398 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 977880013399 active site 977880013400 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 977880013401 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 977880013402 generic binding surface II; other site 977880013403 generic binding surface I; other site 977880013404 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 977880013405 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 977880013406 NADP binding site [chemical binding]; other site 977880013407 dimer interface [polypeptide binding]; other site 977880013408 Survival protein SurE; Region: SurE; pfam01975 977880013409 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880013410 Coenzyme A transferase; Region: CoA_trans; cl17247 977880013411 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 977880013412 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880013413 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880013414 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880013415 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_16; cd07263 977880013416 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880013417 pyruvate kinase; Provisional; Region: PRK06247 977880013418 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 977880013419 domain interfaces; other site 977880013420 active site 977880013421 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 977880013422 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 977880013423 MOFRL family; Region: MOFRL; pfam05161 977880013424 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 977880013425 tartrate dehydrogenase; Region: TTC; TIGR02089 977880013426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880013427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880013428 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 977880013429 putative effector binding pocket; other site 977880013430 putative dimerization interface [polypeptide binding]; other site 977880013431 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 977880013432 Serine hydrolase (FSH1); Region: FSH1; pfam03959 977880013433 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 977880013434 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 977880013435 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 977880013436 N-terminal plug; other site 977880013437 ligand-binding site [chemical binding]; other site 977880013438 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880013439 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 977880013440 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 977880013441 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 977880013442 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880013443 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 977880013444 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 977880013445 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 977880013446 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 977880013447 catalytic loop [active] 977880013448 iron binding site [ion binding]; other site 977880013449 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 977880013450 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 977880013451 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 977880013452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880013453 homodimer interface [polypeptide binding]; other site 977880013454 catalytic residue [active] 977880013455 aromatic amino acid transporter; Provisional; Region: PRK10238 977880013456 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 977880013457 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 977880013458 dimer interface [polypeptide binding]; other site 977880013459 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 977880013460 active site 977880013461 Fe binding site [ion binding]; other site 977880013462 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 977880013463 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 977880013464 putative DNA binding site [nucleotide binding]; other site 977880013465 putative Zn2+ binding site [ion binding]; other site 977880013466 AsnC family; Region: AsnC_trans_reg; pfam01037 977880013467 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 977880013468 putative active site [active] 977880013469 heme pocket [chemical binding]; other site 977880013470 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880013471 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 977880013472 dimer interface [polypeptide binding]; other site 977880013473 phosphorylation site [posttranslational modification] 977880013474 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 977880013475 ATP binding site [chemical binding]; other site 977880013476 Mg2+ binding site [ion binding]; other site 977880013477 G-X-G motif; other site 977880013478 Response regulator receiver domain; Region: Response_reg; pfam00072 977880013479 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 977880013480 active site 977880013481 phosphorylation site [posttranslational modification] 977880013482 intermolecular recognition site; other site 977880013483 dimerization interface [polypeptide binding]; other site 977880013484 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880013485 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 977880013486 active site 977880013487 phosphorylation site [posttranslational modification] 977880013488 intermolecular recognition site; other site 977880013489 dimerization interface [polypeptide binding]; other site 977880013490 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 977880013491 DNA binding residues [nucleotide binding] 977880013492 dimerization interface [polypeptide binding]; other site 977880013493 Hpt domain; Region: Hpt; pfam01627 977880013494 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880013495 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880013496 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 977880013497 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 977880013498 active site 977880013499 nucleophile elbow; other site 977880013500 hypothetical protein; Provisional; Region: PRK11239 977880013501 Protein of unknown function, DUF480; Region: DUF480; pfam04337 977880013502 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 977880013503 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 977880013504 ligand binding site [chemical binding]; other site 977880013505 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 977880013506 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880013507 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 977880013508 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 977880013509 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 977880013510 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880013511 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 977880013512 DNA binding site [nucleotide binding] 977880013513 active site 977880013514 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 977880013515 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 977880013516 SnoaL-like domain; Region: SnoaL_2; pfam12680 977880013517 hypothetical protein; Provisional; Region: PRK06156 977880013518 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 977880013519 metal binding site [ion binding]; metal-binding site 977880013520 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 977880013521 catalytic triad [active] 977880013522 dimer interface [polypeptide binding]; other site 977880013523 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 977880013524 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 977880013525 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880013526 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 977880013527 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880013528 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880013529 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 977880013530 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 977880013531 N-terminal plug; other site 977880013532 ligand-binding site [chemical binding]; other site 977880013533 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 977880013534 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 977880013535 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880013536 acyl-activating enzyme (AAE) consensus motif; other site 977880013537 AMP binding site [chemical binding]; other site 977880013538 active site 977880013539 CoA binding site [chemical binding]; other site 977880013540 BON domain; Region: BON; pfam04972 977880013541 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 977880013542 BON domain; Region: BON; pfam04972 977880013543 BON domain; Region: BON; pfam04972 977880013544 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 977880013545 conserved cys residue [active] 977880013546 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 977880013547 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880013548 glutamate carboxypeptidase; Reviewed; Region: PRK06133 977880013549 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 977880013550 metal binding site [ion binding]; metal-binding site 977880013551 dimer interface [polypeptide binding]; other site 977880013552 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 977880013553 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 977880013554 putative active site [active] 977880013555 catalytic site [active] 977880013556 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 977880013557 putative active site [active] 977880013558 catalytic site [active] 977880013559 oxidase reductase; Provisional; Region: PTZ00273 977880013560 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 977880013561 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 977880013562 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 977880013563 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 977880013564 E-class dimer interface [polypeptide binding]; other site 977880013565 P-class dimer interface [polypeptide binding]; other site 977880013566 active site 977880013567 Cu2+ binding site [ion binding]; other site 977880013568 Zn2+ binding site [ion binding]; other site 977880013569 transcriptional regulator; Provisional; Region: PRK10632 977880013570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880013571 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 977880013572 putative effector binding pocket; other site 977880013573 putative dimerization interface [polypeptide binding]; other site 977880013574 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 977880013575 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 977880013576 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880013577 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880013578 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 977880013579 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 977880013580 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 977880013581 hydrophobic ligand binding site; other site 977880013582 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 977880013583 substrate binding site [chemical binding]; other site 977880013584 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 977880013585 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 977880013586 generic binding surface I; other site 977880013587 generic binding surface II; other site 977880013588 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 977880013589 putative catalytic site [active] 977880013590 putative metal binding site [ion binding]; other site 977880013591 putative phosphate binding site [ion binding]; other site 977880013592 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 977880013593 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 977880013594 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 977880013595 integrase; Provisional; Region: PRK09692 977880013596 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 977880013597 active site 977880013598 Int/Topo IB signature motif; other site 977880013599 Src homology 2 (SH2) domain; Region: SH2; cl15255 977880013600 phosphotyrosine binding pocket [polypeptide binding]; other site 977880013601 hydrophobic binding pocket [polypeptide binding]; other site 977880013602 Family description; Region: VCBS; pfam13517 977880013603 Family description; Region: VCBS; pfam13517 977880013604 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 977880013605 Effector from type III secretion system; Region: Effector_1; pfam04518 977880013606 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 977880013607 non-specific DNA binding site [nucleotide binding]; other site 977880013608 salt bridge; other site 977880013609 sequence-specific DNA binding site [nucleotide binding]; other site 977880013610 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 977880013611 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 977880013612 DNA binding site [nucleotide binding] 977880013613 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 977880013614 putative active site [active] 977880013615 putative metal binding site [ion binding]; other site 977880013616 phosphate transporter ATP-binding protein; Provisional; Region: PRK14243 977880013617 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 977880013618 active site 977880013619 substrate binding site [chemical binding]; other site 977880013620 trimer interface [polypeptide binding]; other site 977880013621 CoA binding site [chemical binding]; other site 977880013622 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880013623 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880013624 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880013625 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880013626 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880013627 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880013628 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 977880013629 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 977880013630 putative active site [active] 977880013631 putative metal binding site [ion binding]; other site 977880013632 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 977880013633 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 977880013634 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 977880013635 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 977880013636 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 977880013637 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 977880013638 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 977880013639 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 977880013640 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 977880013641 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 977880013642 Tetratricopeptide repeat; Region: TPR_16; pfam13432 977880013643 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 977880013644 TPR motif; other site 977880013645 binding surface 977880013646 Protein of unknown function (DUF770); Region: DUF770; pfam05591 977880013647 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 977880013648 Protein of unknown function (DUF877); Region: DUF877; pfam05943 977880013649 Protein of unknown function (DUF796); Region: DUF796; cl01226 977880013650 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 977880013651 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 977880013652 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 977880013653 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 977880013654 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 977880013655 Clp amino terminal domain; Region: Clp_N; pfam02861 977880013656 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 977880013657 Walker A motif; other site 977880013658 ATP binding site [chemical binding]; other site 977880013659 Walker B motif; other site 977880013660 arginine finger; other site 977880013661 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 977880013662 Walker A motif; other site 977880013663 ATP binding site [chemical binding]; other site 977880013664 Walker B motif; other site 977880013665 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 977880013666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 977880013667 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 977880013668 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 977880013669 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 977880013670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 977880013671 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 977880013672 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 977880013673 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 977880013674 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 977880013675 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 977880013676 ligand binding site [chemical binding]; other site 977880013677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SciT; COG3913 977880013678 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 977880013679 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 977880013680 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 977880013681 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 977880013682 3-oxoacyl-(acyl carrier protein) synthase; Validated; Region: PRK06147 977880013683 PAAR motif; Region: PAAR_motif; pfam05488 977880013684 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 977880013685 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 977880013686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 977880013687 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 977880013688 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 977880013689 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 977880013690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 977880013691 Catalytic domain, repeat 1, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_1; cd09104 977880013692 putative active site [active] 977880013693 catalytic site [active] 977880013694 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 977880013695 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 977880013696 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, yeast PLDs, and similar proteins; Region: PLDc_vPLD1_2_yPLD_like_2; cd09141 977880013697 putative active site [active] 977880013698 catalytic site [active] 977880013699 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 977880013700 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 977880013701 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 977880013702 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 977880013703 active site 977880013704 FMN binding site [chemical binding]; other site 977880013705 substrate binding site [chemical binding]; other site 977880013706 homotetramer interface [polypeptide binding]; other site 977880013707 catalytic residue [active] 977880013708 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880013709 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 977880013710 Protein of unknown function (DUF1290); Region: DUF1290; cl01587 977880013711 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 977880013712 dimer interface [polypeptide binding]; other site 977880013713 phosphorylation site [posttranslational modification] 977880013714 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 977880013715 ATP binding site [chemical binding]; other site 977880013716 Mg2+ binding site [ion binding]; other site 977880013717 G-X-G motif; other site 977880013718 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 977880013719 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 977880013720 active site 977880013721 phosphorylation site [posttranslational modification] 977880013722 intermolecular recognition site; other site 977880013723 dimerization interface [polypeptide binding]; other site 977880013724 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880013725 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 977880013726 active site 977880013727 phosphorylation site [posttranslational modification] 977880013728 intermolecular recognition site; other site 977880013729 dimerization interface [polypeptide binding]; other site 977880013730 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 977880013731 DNA binding residues [nucleotide binding] 977880013732 dimerization interface [polypeptide binding]; other site 977880013733 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 977880013734 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 977880013735 ligand binding site [chemical binding]; other site 977880013736 flexible hinge region; other site 977880013737 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 977880013738 non-specific DNA interactions [nucleotide binding]; other site 977880013739 DNA binding site [nucleotide binding] 977880013740 sequence specific DNA binding site [nucleotide binding]; other site 977880013741 putative cAMP binding site [chemical binding]; other site 977880013742 acyl-CoA synthetase; Validated; Region: PRK08162 977880013743 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 977880013744 acyl-activating enzyme (AAE) consensus motif; other site 977880013745 putative active site [active] 977880013746 AMP binding site [chemical binding]; other site 977880013747 putative CoA binding site [chemical binding]; other site 977880013748 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 977880013749 dimerization interface [polypeptide binding]; other site 977880013750 putative active cleft [active] 977880013751 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 977880013752 Serine hydrolase (FSH1); Region: FSH1; pfam03959 977880013753 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880013754 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880013755 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880013756 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880013757 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880013758 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880013759 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 977880013760 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 977880013761 putative active site [active] 977880013762 Zn binding site [ion binding]; other site 977880013763 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880013764 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 977880013765 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 977880013766 dimerization interface [polypeptide binding]; other site 977880013767 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 977880013768 Phosphoesterase family; Region: Phosphoesterase; pfam04185 977880013769 Domain of unknown function (DUF756); Region: DUF756; pfam05506 977880013770 Domain of unknown function (DUF756); Region: DUF756; pfam05506 977880013771 Uncharacterized conserved protein [Function unknown]; Region: COG3379 977880013772 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 977880013773 Transcriptional regulators [Transcription]; Region: GntR; COG1802 977880013774 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880013775 DNA-binding site [nucleotide binding]; DNA binding site 977880013776 FCD domain; Region: FCD; pfam07729 977880013777 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 977880013778 homodimer interface [polypeptide binding]; other site 977880013779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880013780 catalytic residue [active] 977880013781 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880013782 D-galactonate transporter; Region: 2A0114; TIGR00893 977880013783 putative substrate translocation pore; other site 977880013784 amidase; Provisional; Region: PRK08137 977880013785 Amidase; Region: Amidase; cl11426 977880013786 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880013787 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880013788 putative substrate translocation pore; other site 977880013789 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880013790 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 977880013791 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 977880013792 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 977880013793 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 977880013794 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 977880013795 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 977880013796 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880013797 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 977880013798 dimerization interface [polypeptide binding]; other site 977880013799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880013800 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 977880013801 galactarate dehydratase; Region: galactar-dH20; TIGR03248 977880013802 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 977880013803 succinic semialdehyde dehydrogenase; Region: PLN02278 977880013804 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 977880013805 tetramerization interface [polypeptide binding]; other site 977880013806 NAD(P) binding site [chemical binding]; other site 977880013807 catalytic residues [active] 977880013808 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 977880013809 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 977880013810 FAD binding domain; Region: FAD_binding_4; pfam01565 977880013811 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 977880013812 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 977880013813 ABC-2 type transporter; Region: ABC2_membrane; cl17235 977880013814 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 977880013815 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 977880013816 Walker A/P-loop; other site 977880013817 ATP binding site [chemical binding]; other site 977880013818 Q-loop/lid; other site 977880013819 ABC transporter signature motif; other site 977880013820 Walker B; other site 977880013821 D-loop; other site 977880013822 H-loop/switch region; other site 977880013823 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 977880013824 Chain length determinant protein; Region: Wzz; cl15801 977880013825 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 977880013826 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 977880013827 SLBB domain; Region: SLBB; pfam10531 977880013828 Glycosyltransferase like family 2; Region: Glyco_tranf_2_2; pfam10111 977880013829 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 977880013830 active site 977880013831 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 977880013832 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 977880013833 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 977880013834 trimer interface [polypeptide binding]; other site 977880013835 active site 977880013836 substrate binding site [chemical binding]; other site 977880013837 CoA binding site [chemical binding]; other site 977880013838 KpsF/GutQ family protein; Region: kpsF; TIGR00393 977880013839 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 977880013840 putative active site [active] 977880013841 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 977880013842 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 977880013843 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 977880013844 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 977880013845 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 977880013846 Predicted transcriptional regulators [Transcription]; Region: COG1695 977880013847 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 977880013848 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 977880013849 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 977880013850 FAD binding pocket [chemical binding]; other site 977880013851 FAD binding motif [chemical binding]; other site 977880013852 phosphate binding motif [ion binding]; other site 977880013853 NAD binding pocket [chemical binding]; other site 977880013854 aminotransferase; Validated; Region: PRK08175 977880013855 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 977880013856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880013857 homodimer interface [polypeptide binding]; other site 977880013858 catalytic residue [active] 977880013859 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 977880013860 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 977880013861 ligand binding site [chemical binding]; other site 977880013862 flexible hinge region; other site 977880013863 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 977880013864 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 977880013865 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 977880013866 substrate binding site [chemical binding]; other site 977880013867 oxyanion hole (OAH) forming residues; other site 977880013868 trimer interface [polypeptide binding]; other site 977880013869 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 977880013870 enoyl-CoA hydratase; Provisional; Region: PRK09076 977880013871 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 977880013872 substrate binding site [chemical binding]; other site 977880013873 oxyanion hole (OAH) forming residues; other site 977880013874 trimer interface [polypeptide binding]; other site 977880013875 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 977880013876 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 977880013877 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 977880013878 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 977880013879 tetrameric interface [polypeptide binding]; other site 977880013880 NAD binding site [chemical binding]; other site 977880013881 catalytic residues [active] 977880013882 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880013883 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880013884 active site 977880013885 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 977880013886 Helix-turn-helix domain; Region: HTH_18; pfam12833 977880013887 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880013888 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 977880013889 S-formylglutathione hydrolase; Region: PLN02442 977880013890 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 977880013891 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 977880013892 substrate binding site [chemical binding]; other site 977880013893 catalytic Zn binding site [ion binding]; other site 977880013894 NAD binding site [chemical binding]; other site 977880013895 structural Zn binding site [ion binding]; other site 977880013896 dimer interface [polypeptide binding]; other site 977880013897 TLC ATP/ADP transporter; Region: TLC; cl03940 977880013898 TLC ATP/ADP transporter; Region: TLC; cl03940 977880013899 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 977880013900 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 977880013901 active site 977880013902 catalytic tetrad [active] 977880013903 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 977880013904 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 977880013905 GntP family permease; Region: GntP_permease; pfam02447 977880013906 fructuronate transporter; Provisional; Region: PRK10034; cl15264 977880013907 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 977880013908 homotrimer interaction site [polypeptide binding]; other site 977880013909 putative active site [active] 977880013910 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 977880013911 Amidohydrolase family; Region: Amidohydro_3; pfam07969 977880013912 active site 977880013913 putative substrate binding pocket [chemical binding]; other site 977880013914 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 977880013915 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 977880013916 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 977880013917 putative active site [active] 977880013918 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 977880013919 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 977880013920 dimer interface [polypeptide binding]; other site 977880013921 active site 977880013922 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 977880013923 substrate binding site [chemical binding]; other site 977880013924 catalytic residue [active] 977880013925 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 977880013926 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 977880013927 substrate binding site [chemical binding]; other site 977880013928 ATP binding site [chemical binding]; other site 977880013929 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 977880013930 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 977880013931 active site 977880013932 intersubunit interface [polypeptide binding]; other site 977880013933 catalytic residue [active] 977880013934 Predicted small secreted protein [Function unknown]; Region: COG5510 977880013935 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 977880013936 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 977880013937 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 977880013938 Domain of unknown function DUF21; Region: DUF21; pfam01595 977880013939 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 977880013940 Transporter associated domain; Region: CorC_HlyC; smart01091 977880013941 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 977880013942 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 977880013943 non-specific DNA binding site [nucleotide binding]; other site 977880013944 salt bridge; other site 977880013945 sequence-specific DNA binding site [nucleotide binding]; other site 977880013946 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 977880013947 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 977880013948 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 977880013949 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 977880013950 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 977880013951 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 977880013952 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 977880013953 Ligand binding site; other site 977880013954 DXD motif; other site 977880013955 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880013956 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 977880013957 putative substrate translocation pore; other site 977880013958 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 977880013959 Mechanosensitive ion channel; Region: MS_channel; pfam00924 977880013960 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 977880013961 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 977880013962 IHF dimer interface [polypeptide binding]; other site 977880013963 IHF - DNA interface [nucleotide binding]; other site 977880013964 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 977880013965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 977880013966 CreA protein; Region: CreA; pfam05981 977880013967 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 977880013968 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 977880013969 active site 977880013970 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 977880013971 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880013972 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 977880013973 acyl-activating enzyme (AAE) consensus motif; other site 977880013974 putative AMP binding site [chemical binding]; other site 977880013975 putative active site [active] 977880013976 putative CoA binding site [chemical binding]; other site 977880013977 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 977880013978 classical (c) SDRs; Region: SDR_c; cd05233 977880013979 NAD(P) binding site [chemical binding]; other site 977880013980 active site 977880013981 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 977880013982 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 977880013983 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 977880013984 ligand binding site [chemical binding]; other site 977880013985 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880013986 DNA-binding site [nucleotide binding]; DNA binding site 977880013987 Predicted membrane protein [Function unknown]; Region: COG4539 977880013988 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880013989 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 977880013990 ATP binding site [chemical binding]; other site 977880013991 Mg2+ binding site [ion binding]; other site 977880013992 G-X-G motif; other site 977880013993 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 977880013994 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 977880013995 active site 977880013996 phosphorylation site [posttranslational modification] 977880013997 intermolecular recognition site; other site 977880013998 dimerization interface [polypeptide binding]; other site 977880013999 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 977880014000 DNA binding site [nucleotide binding] 977880014001 Predicted membrane protein [Function unknown]; Region: COG3212 977880014002 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 977880014003 IHF dimer interface [polypeptide binding]; other site 977880014004 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 977880014005 IHF - DNA interface [nucleotide binding]; other site 977880014006 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 977880014007 putative substrate binding pocket [chemical binding]; other site 977880014008 trimer interface [polypeptide binding]; other site 977880014009 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880014010 dimer interface [polypeptide binding]; other site 977880014011 putative CheW interface [polypeptide binding]; other site 977880014012 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 977880014013 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 977880014014 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 977880014015 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880014016 metal binding site [ion binding]; metal-binding site 977880014017 active site 977880014018 I-site; other site 977880014019 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 977880014020 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 977880014021 active site 977880014022 phosphorylation site [posttranslational modification] 977880014023 intermolecular recognition site; other site 977880014024 dimerization interface [polypeptide binding]; other site 977880014025 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 977880014026 DNA binding site [nucleotide binding] 977880014027 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 977880014028 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 977880014029 putative active site [active] 977880014030 catalytic site [active] 977880014031 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 977880014032 putative active site [active] 977880014033 catalytic site [active] 977880014034 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880014035 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880014036 WHG domain; Region: WHG; pfam13305 977880014037 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 977880014038 active site 977880014039 DNA binding site [nucleotide binding] 977880014040 Int/Topo IB signature motif; other site 977880014041 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 977880014042 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 977880014043 RES domain; Region: RES; pfam08808 977880014044 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 977880014045 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880014046 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 977880014047 acyl-activating enzyme (AAE) consensus motif; other site 977880014048 acyl-activating enzyme (AAE) consensus motif; other site 977880014049 putative AMP binding site [chemical binding]; other site 977880014050 putative active site [active] 977880014051 putative CoA binding site [chemical binding]; other site 977880014052 DEAD_2; Region: DEAD_2; pfam06733 977880014053 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 977880014054 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 977880014055 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 977880014056 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 977880014057 catalytic residues [active] 977880014058 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880014059 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 977880014060 putative metal binding site [ion binding]; other site 977880014061 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014062 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 977880014063 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 977880014064 putative dimerization interface [polypeptide binding]; other site 977880014065 Cupin domain; Region: Cupin_2; cl17218 977880014066 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 977880014067 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 977880014068 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880014069 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880014070 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 977880014071 Fusaric acid resistance protein family; Region: FUSC; pfam04632 977880014072 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880014073 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014074 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 977880014075 putative dimerization interface [polypeptide binding]; other site 977880014076 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 977880014077 Cytochrome P450; Region: p450; cl12078 977880014078 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 977880014079 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 977880014080 FMN-binding pocket [chemical binding]; other site 977880014081 flavin binding motif; other site 977880014082 phosphate binding motif [ion binding]; other site 977880014083 beta-alpha-beta structure motif; other site 977880014084 NAD binding pocket [chemical binding]; other site 977880014085 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 977880014086 catalytic loop [active] 977880014087 iron binding site [ion binding]; other site 977880014088 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880014089 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 977880014090 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880014091 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880014092 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 977880014093 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 977880014094 active site 977880014095 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 977880014096 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880014097 Walker A/P-loop; other site 977880014098 ATP binding site [chemical binding]; other site 977880014099 Q-loop/lid; other site 977880014100 ABC transporter signature motif; other site 977880014101 Walker B; other site 977880014102 D-loop; other site 977880014103 H-loop/switch region; other site 977880014104 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 977880014105 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880014106 Walker A/P-loop; other site 977880014107 ATP binding site [chemical binding]; other site 977880014108 Q-loop/lid; other site 977880014109 ABC transporter signature motif; other site 977880014110 Walker B; other site 977880014111 D-loop; other site 977880014112 H-loop/switch region; other site 977880014113 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 977880014114 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 977880014115 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 977880014116 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 977880014117 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 977880014118 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 977880014119 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880014120 DNA-binding site [nucleotide binding]; DNA binding site 977880014121 UTRA domain; Region: UTRA; pfam07702 977880014122 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 977880014123 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 977880014124 AAA domain; Region: AAA_33; pfam13671 977880014125 active site 977880014126 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880014127 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 977880014128 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 977880014129 dimer interface [polypeptide binding]; other site 977880014130 conserved gate region; other site 977880014131 ABC-ATPase subunit interface; other site 977880014132 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 977880014133 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 977880014134 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 977880014135 Walker A/P-loop; other site 977880014136 ATP binding site [chemical binding]; other site 977880014137 Q-loop/lid; other site 977880014138 ABC transporter signature motif; other site 977880014139 Walker B; other site 977880014140 D-loop; other site 977880014141 H-loop/switch region; other site 977880014142 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 977880014143 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 977880014144 Domain of unknown function (DUF305); Region: DUF305; pfam03713 977880014145 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 977880014146 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 977880014147 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 977880014148 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 977880014149 Histidine kinase; Region: HisKA_3; pfam07730 977880014150 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 977880014151 ATP binding site [chemical binding]; other site 977880014152 Mg2+ binding site [ion binding]; other site 977880014153 G-X-G motif; other site 977880014154 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880014155 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 977880014156 active site 977880014157 phosphorylation site [posttranslational modification] 977880014158 intermolecular recognition site; other site 977880014159 dimerization interface [polypeptide binding]; other site 977880014160 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 977880014161 DNA binding residues [nucleotide binding] 977880014162 dimerization interface [polypeptide binding]; other site 977880014163 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 977880014164 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 977880014165 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 977880014166 catalytic residue [active] 977880014167 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 977880014168 homotrimer interaction site [polypeptide binding]; other site 977880014169 putative active site [active] 977880014170 tricarballylate dehydrogenase; Validated; Region: PRK08274 977880014171 hydroxyglutarate oxidase; Provisional; Region: PRK11728 977880014172 tricarballylate utilization protein B; Provisional; Region: PRK15033 977880014173 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880014174 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 977880014175 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014176 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 977880014177 putative dimerization interface [polypeptide binding]; other site 977880014178 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 977880014179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014180 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 977880014181 dimerization interface [polypeptide binding]; other site 977880014182 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 977880014183 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 977880014184 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 977880014185 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 977880014186 Sulfate transporter family; Region: Sulfate_transp; pfam00916 977880014187 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 977880014188 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 977880014189 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 977880014190 putative hydrophobic ligand binding site [chemical binding]; other site 977880014191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 977880014192 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 977880014193 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 977880014194 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 977880014195 acyl-activating enzyme (AAE) consensus motif; other site 977880014196 active site 977880014197 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 977880014198 Condensation domain; Region: Condensation; pfam00668 977880014199 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 977880014200 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 977880014201 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 977880014202 Condensation domain; Region: Condensation; pfam00668 977880014203 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 977880014204 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 977880014205 acyl-activating enzyme (AAE) consensus motif; other site 977880014206 AMP binding site [chemical binding]; other site 977880014207 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 977880014208 Condensation domain; Region: Condensation; pfam00668 977880014209 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 977880014210 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 977880014211 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 977880014212 acyl-activating enzyme (AAE) consensus motif; other site 977880014213 AMP binding site [chemical binding]; other site 977880014214 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 977880014215 Condensation domain; Region: Condensation; pfam00668 977880014216 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 977880014217 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 977880014218 Condensation domain; Region: Condensation; pfam00668 977880014219 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 977880014220 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 977880014221 acyl-activating enzyme (AAE) consensus motif; other site 977880014222 AMP binding site [chemical binding]; other site 977880014223 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 977880014224 Condensation domain; Region: Condensation; pfam00668 977880014225 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 977880014226 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 977880014227 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 977880014228 acyl-activating enzyme (AAE) consensus motif; other site 977880014229 AMP binding site [chemical binding]; other site 977880014230 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 977880014231 Condensation domain; Region: Condensation; pfam00668 977880014232 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 977880014233 Condensation domain; Region: Condensation; pfam00668 977880014234 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 977880014235 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 977880014236 acyl-activating enzyme (AAE) consensus motif; other site 977880014237 AMP binding site [chemical binding]; other site 977880014238 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 977880014239 Condensation domain; Region: Condensation; pfam00668 977880014240 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 977880014241 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 977880014242 acyl-activating enzyme (AAE) consensus motif; other site 977880014243 AMP binding site [chemical binding]; other site 977880014244 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 977880014245 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 977880014246 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 977880014247 N-terminal plug; other site 977880014248 ligand-binding site [chemical binding]; other site 977880014249 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 977880014250 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 977880014251 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 977880014252 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 977880014253 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 977880014254 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 977880014255 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 977880014256 Walker A/P-loop; other site 977880014257 ATP binding site [chemical binding]; other site 977880014258 Q-loop/lid; other site 977880014259 ABC transporter signature motif; other site 977880014260 Walker B; other site 977880014261 D-loop; other site 977880014262 H-loop/switch region; other site 977880014263 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 977880014264 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 977880014265 substrate binding pocket [chemical binding]; other site 977880014266 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 977880014267 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 977880014268 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 977880014269 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880014270 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880014271 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 977880014272 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 977880014273 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 977880014274 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 977880014275 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 977880014276 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 977880014277 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880014278 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 977880014279 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880014280 putative substrate translocation pore; other site 977880014281 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880014282 Fic/DOC family; Region: Fic; pfam02661 977880014283 Domain of unknown function (DUF4392); Region: DUF4392; pfam14336 977880014284 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 977880014285 Domain of unknown function (DUF4392); Region: DUF4392; pfam14336 977880014286 hypothetical protein; Provisional; Region: PRK05463 977880014287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880014288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014289 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 977880014290 dimerization interface [polypeptide binding]; other site 977880014291 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 977880014292 hydrophobic ligand binding site; other site 977880014293 benzoate transport; Region: 2A0115; TIGR00895 977880014294 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880014295 putative substrate translocation pore; other site 977880014296 Autoinducer binding domain; Region: Autoind_bind; pfam03472 977880014297 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880014298 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 977880014299 DNA binding residues [nucleotide binding] 977880014300 dimerization interface [polypeptide binding]; other site 977880014301 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 977880014302 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 977880014303 Bacterial export proteins, family 1; Region: Bac_export_1; pfam01311 977880014304 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 977880014305 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 977880014306 Walker A motif; other site 977880014307 ATP binding site [chemical binding]; other site 977880014308 Walker B motif; other site 977880014309 Flagellar assembly protein FliH; Region: FliH; pfam02108 977880014310 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 977880014311 type III secretion system protein SsaD; Provisional; Region: PRK15367 977880014312 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 977880014313 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 977880014314 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 977880014315 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 977880014316 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 977880014317 FHIPEP family; Region: FHIPEP; pfam00771 977880014318 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 977880014319 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 977880014320 type III secretion system protein YscR; Provisional; Region: PRK12797 977880014321 putative acetyltransferase; Provisional; Region: PRK03624 977880014322 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880014323 Coenzyme A binding pocket [chemical binding]; other site 977880014324 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880014325 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880014326 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 977880014327 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 977880014328 dimer interface [polypeptide binding]; other site 977880014329 phosphorylation site [posttranslational modification] 977880014330 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 977880014331 ATP binding site [chemical binding]; other site 977880014332 Mg2+ binding site [ion binding]; other site 977880014333 G-X-G motif; other site 977880014334 osmolarity response regulator; Provisional; Region: ompR; PRK09468 977880014335 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 977880014336 active site 977880014337 phosphorylation site [posttranslational modification] 977880014338 intermolecular recognition site; other site 977880014339 dimerization interface [polypeptide binding]; other site 977880014340 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 977880014341 DNA binding site [nucleotide binding] 977880014342 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 977880014343 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 977880014344 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 977880014345 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 977880014346 catalytic residues [active] 977880014347 xanthine permease; Region: pbuX; TIGR03173 977880014348 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 977880014349 Peptidase family M23; Region: Peptidase_M23; pfam01551 977880014350 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 977880014351 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 977880014352 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 977880014353 Cupin domain; Region: Cupin_2; pfam07883 977880014354 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 977880014355 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880014356 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 977880014357 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 977880014358 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880014359 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 977880014360 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 977880014361 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 977880014362 FMN binding site [chemical binding]; other site 977880014363 active site 977880014364 substrate binding site [chemical binding]; other site 977880014365 catalytic residue [active] 977880014366 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 977880014367 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 977880014368 active site 977880014369 catalytic tetrad [active] 977880014370 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 977880014371 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880014372 putative substrate translocation pore; other site 977880014373 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880014374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014375 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 977880014376 dimerization interface [polypeptide binding]; other site 977880014377 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014378 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 977880014379 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 977880014380 putative dimerization interface [polypeptide binding]; other site 977880014381 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 977880014382 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 977880014383 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 977880014384 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880014385 Walker A/P-loop; other site 977880014386 ATP binding site [chemical binding]; other site 977880014387 Q-loop/lid; other site 977880014388 ABC transporter signature motif; other site 977880014389 Walker B; other site 977880014390 D-loop; other site 977880014391 H-loop/switch region; other site 977880014392 TOBE domain; Region: TOBE_2; pfam08402 977880014393 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 977880014394 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 977880014395 dimer interface [polypeptide binding]; other site 977880014396 conserved gate region; other site 977880014397 putative PBP binding loops; other site 977880014398 ABC-ATPase subunit interface; other site 977880014399 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 977880014400 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 977880014401 dimer interface [polypeptide binding]; other site 977880014402 conserved gate region; other site 977880014403 putative PBP binding loops; other site 977880014404 ABC-ATPase subunit interface; other site 977880014405 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 977880014406 hydroxyglutarate oxidase; Provisional; Region: PRK11728 977880014407 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 977880014408 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 977880014409 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 977880014410 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 977880014411 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 977880014412 homotrimer interaction site [polypeptide binding]; other site 977880014413 putative active site [active] 977880014414 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 977880014415 putative hydrophobic ligand binding site [chemical binding]; other site 977880014416 protein interface [polypeptide binding]; other site 977880014417 gate; other site 977880014418 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 977880014419 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 977880014420 active site 977880014421 catalytic tetrad [active] 977880014422 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 977880014423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014424 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 977880014425 dimerization interface [polypeptide binding]; other site 977880014426 substrate binding pocket [chemical binding]; other site 977880014427 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 977880014428 Double zinc ribbon; Region: DZR; pfam12773 977880014429 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 977880014430 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 977880014431 cyclase homology domain; Region: CHD; cd07302 977880014432 nucleotidyl binding site; other site 977880014433 metal binding site [ion binding]; metal-binding site 977880014434 dimer interface [polypeptide binding]; other site 977880014435 AAA ATPase domain; Region: AAA_16; pfam13191 977880014436 Predicted ATPase [General function prediction only]; Region: COG3899 977880014437 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 977880014438 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 977880014439 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 977880014440 active site 977880014441 nucleophile elbow; other site 977880014442 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 977880014443 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880014444 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 977880014445 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880014446 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880014447 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 977880014448 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 977880014449 catalytic loop [active] 977880014450 iron binding site [ion binding]; other site 977880014451 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 977880014452 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 977880014453 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014454 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 977880014455 dimerization interface [polypeptide binding]; other site 977880014456 substrate binding pocket [chemical binding]; other site 977880014457 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 977880014458 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 977880014459 Ligand binding site; other site 977880014460 Putative Catalytic site; other site 977880014461 DXD motif; other site 977880014462 Mannosyltransferase (PIG-V)); Region: Mannosyl_trans2; pfam04188 977880014463 Uncharacterized conserved protein [Function unknown]; Region: COG5476 977880014464 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 977880014465 MlrC C-terminus; Region: MlrC_C; pfam07171 977880014466 allantoate amidohydrolase; Reviewed; Region: PRK12893 977880014467 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 977880014468 active site 977880014469 metal binding site [ion binding]; metal-binding site 977880014470 dimer interface [polypeptide binding]; other site 977880014471 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 977880014472 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 977880014473 Walker A/P-loop; other site 977880014474 ATP binding site [chemical binding]; other site 977880014475 Q-loop/lid; other site 977880014476 ABC transporter signature motif; other site 977880014477 Walker B; other site 977880014478 D-loop; other site 977880014479 H-loop/switch region; other site 977880014480 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 977880014481 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 977880014482 Walker A/P-loop; other site 977880014483 ATP binding site [chemical binding]; other site 977880014484 Q-loop/lid; other site 977880014485 ABC transporter signature motif; other site 977880014486 Walker B; other site 977880014487 D-loop; other site 977880014488 H-loop/switch region; other site 977880014489 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 977880014490 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 977880014491 TM-ABC transporter signature motif; other site 977880014492 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 977880014493 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 977880014494 TM-ABC transporter signature motif; other site 977880014495 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 977880014496 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 977880014497 putative ligand binding site [chemical binding]; other site 977880014498 Transcriptional regulators [Transcription]; Region: FadR; COG2186 977880014499 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880014500 DNA-binding site [nucleotide binding]; DNA binding site 977880014501 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 977880014502 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 977880014503 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 977880014504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880014505 homodimer interface [polypeptide binding]; other site 977880014506 catalytic residue [active] 977880014507 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 977880014508 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880014509 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 977880014510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014511 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 977880014512 dimerization interface [polypeptide binding]; other site 977880014513 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 977880014514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014515 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 977880014516 putative dimerization interface [polypeptide binding]; other site 977880014517 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880014518 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 977880014519 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880014520 MarR family; Region: MarR_2; pfam12802 977880014521 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880014522 Sulfatase; Region: Sulfatase; cl17466 977880014523 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 977880014524 Protein required for attachment to host cells; Region: Host_attach; pfam10116 977880014525 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 977880014526 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880014527 DNA-binding site [nucleotide binding]; DNA binding site 977880014528 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 977880014529 choline dehydrogenase; Validated; Region: PRK02106 977880014530 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 977880014531 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 977880014532 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 977880014533 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 977880014534 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 977880014535 NAD binding site [chemical binding]; other site 977880014536 catalytic residues [active] 977880014537 Domain of unknown function DUF20; Region: UPF0118; pfam01594 977880014538 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 977880014539 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 977880014540 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 977880014541 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 977880014542 tetramerization interface [polypeptide binding]; other site 977880014543 NAD(P) binding site [chemical binding]; other site 977880014544 catalytic residues [active] 977880014545 Flagellar transcriptional activator (FlhD); Region: FlhD; pfam05247 977880014546 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 977880014547 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 977880014548 ligand binding site [chemical binding]; other site 977880014549 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 977880014550 putative switch regulator; other site 977880014551 non-specific DNA interactions [nucleotide binding]; other site 977880014552 DNA binding site [nucleotide binding] 977880014553 sequence specific DNA binding site [nucleotide binding]; other site 977880014554 putative cAMP binding site [chemical binding]; other site 977880014555 PAS domain S-box; Region: sensory_box; TIGR00229 977880014556 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 977880014557 putative active site [active] 977880014558 heme pocket [chemical binding]; other site 977880014559 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 977880014560 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 977880014561 putative active site [active] 977880014562 heme pocket [chemical binding]; other site 977880014563 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 977880014564 dimer interface [polypeptide binding]; other site 977880014565 phosphorylation site [posttranslational modification] 977880014566 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 977880014567 ATP binding site [chemical binding]; other site 977880014568 Mg2+ binding site [ion binding]; other site 977880014569 G-X-G motif; other site 977880014570 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 977880014571 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 977880014572 active site 977880014573 phosphorylation site [posttranslational modification] 977880014574 intermolecular recognition site; other site 977880014575 dimerization interface [polypeptide binding]; other site 977880014576 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880014577 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880014578 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880014579 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 977880014580 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 977880014581 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 977880014582 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 977880014583 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 977880014584 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 977880014585 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880014586 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 977880014587 Erythromycin esterase; Region: Erythro_esteras; pfam05139 977880014588 BON domain; Region: BON; pfam04972 977880014589 BON domain; Region: BON; pfam04972 977880014590 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 977880014591 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 977880014592 Competence-damaged protein; Region: CinA; pfam02464 977880014593 Domain of unknown function (DUF2383); Region: DUF2383; cl17556 977880014594 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 977880014595 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 977880014596 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 977880014597 active site 977880014598 homodimer interface [polypeptide binding]; other site 977880014599 catalytic site [active] 977880014600 acceptor binding site [chemical binding]; other site 977880014601 trehalose synthase; Region: treS_nterm; TIGR02456 977880014602 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 977880014603 active site 977880014604 catalytic site [active] 977880014605 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 977880014606 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 977880014607 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 977880014608 glycogen branching enzyme; Provisional; Region: PRK05402 977880014609 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 977880014610 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 977880014611 active site 977880014612 catalytic site [active] 977880014613 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 977880014614 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 977880014615 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 977880014616 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 977880014617 active site 977880014618 catalytic site [active] 977880014619 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 977880014620 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 977880014621 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 977880014622 homodimer interface [polypeptide binding]; other site 977880014623 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 977880014624 active site pocket [active] 977880014625 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 977880014626 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 977880014627 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 977880014628 catalytic site [active] 977880014629 active site 977880014630 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 977880014631 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 977880014632 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 977880014633 active site 977880014634 catalytic site [active] 977880014635 BON domain; Region: BON; pfam04972 977880014636 BON domain; Region: BON; pfam04972 977880014637 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 977880014638 putative catalytic site [active] 977880014639 putative metal binding site [ion binding]; other site 977880014640 putative phosphate binding site [ion binding]; other site 977880014641 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 977880014642 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 977880014643 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 977880014644 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 977880014645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880014646 Walker A/P-loop; other site 977880014647 ATP binding site [chemical binding]; other site 977880014648 Q-loop/lid; other site 977880014649 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 977880014650 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 977880014651 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880014652 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 977880014653 homotrimer interaction site [polypeptide binding]; other site 977880014654 putative active site [active] 977880014655 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 977880014656 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 977880014657 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880014658 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 977880014659 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880014660 Walker A/P-loop; other site 977880014661 ATP binding site [chemical binding]; other site 977880014662 Q-loop/lid; other site 977880014663 ABC transporter signature motif; other site 977880014664 Walker B; other site 977880014665 D-loop; other site 977880014666 H-loop/switch region; other site 977880014667 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 977880014668 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 977880014669 Walker A/P-loop; other site 977880014670 ATP binding site [chemical binding]; other site 977880014671 Q-loop/lid; other site 977880014672 ABC transporter signature motif; other site 977880014673 Walker B; other site 977880014674 D-loop; other site 977880014675 H-loop/switch region; other site 977880014676 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 977880014677 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 977880014678 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 977880014679 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 977880014680 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 977880014681 dimer interface [polypeptide binding]; other site 977880014682 conserved gate region; other site 977880014683 putative PBP binding loops; other site 977880014684 ABC-ATPase subunit interface; other site 977880014685 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 977880014686 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 977880014687 dimer interface [polypeptide binding]; other site 977880014688 conserved gate region; other site 977880014689 putative PBP binding loops; other site 977880014690 ABC-ATPase subunit interface; other site 977880014691 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 977880014692 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_13; cd08517 977880014693 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 977880014694 FMN reductase, MsuE subfamily; Region: FMN_reduc_MsuE; TIGR03566 977880014695 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880014696 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 977880014697 active site 977880014698 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 977880014699 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 977880014700 Flavin binding site [chemical binding]; other site 977880014701 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 977880014702 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880014703 active site 977880014704 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 977880014705 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 977880014706 active site 977880014707 non-prolyl cis peptide bond; other site 977880014708 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 977880014709 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 977880014710 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 977880014711 Walker A/P-loop; other site 977880014712 ATP binding site [chemical binding]; other site 977880014713 Q-loop/lid; other site 977880014714 ABC transporter signature motif; other site 977880014715 Walker B; other site 977880014716 D-loop; other site 977880014717 H-loop/switch region; other site 977880014718 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 977880014719 dimer interface [polypeptide binding]; other site 977880014720 conserved gate region; other site 977880014721 ABC-ATPase subunit interface; other site 977880014722 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 977880014723 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880014724 Uncharacterized conserved protein [Function unknown]; Region: COG3791 977880014725 Transcriptional regulators [Transcription]; Region: PurR; COG1609 977880014726 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 977880014727 DNA binding site [nucleotide binding] 977880014728 domain linker motif; other site 977880014729 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 977880014730 dimerization interface [polypeptide binding]; other site 977880014731 ligand binding site [chemical binding]; other site 977880014732 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880014733 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880014734 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 977880014735 trimer interface [polypeptide binding]; other site 977880014736 eyelet of channel; other site 977880014737 Cupin domain; Region: Cupin_2; cl17218 977880014738 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 977880014739 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 977880014740 NAD(P) binding site [chemical binding]; other site 977880014741 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 977880014742 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 977880014743 classical (c) SDRs; Region: SDR_c; cd05233 977880014744 NAD(P) binding site [chemical binding]; other site 977880014745 active site 977880014746 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 977880014747 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 977880014748 active site 977880014749 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 977880014750 Beta-lactamase; Region: Beta-lactamase; pfam00144 977880014751 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880014752 MarR family; Region: MarR_2; pfam12802 977880014753 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 977880014754 dimerization interface [polypeptide binding]; other site 977880014755 active site 977880014756 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 977880014757 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 977880014758 AsnC family; Region: AsnC_trans_reg; pfam01037 977880014759 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 977880014760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014761 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 977880014762 putative dimerization interface [polypeptide binding]; other site 977880014763 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 977880014764 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 977880014765 THF binding site; other site 977880014766 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 977880014767 substrate binding site [chemical binding]; other site 977880014768 THF binding site; other site 977880014769 zinc-binding site [ion binding]; other site 977880014770 Uncharacterized conserved protein [Function unknown]; Region: COG5361 977880014771 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 977880014772 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 977880014773 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 977880014774 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 977880014775 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 977880014776 YciI-like protein; Reviewed; Region: PRK12863 977880014777 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 977880014778 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 977880014779 nudix motif; other site 977880014780 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 977880014781 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 977880014782 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880014783 metal binding site [ion binding]; metal-binding site 977880014784 active site 977880014785 I-site; other site 977880014786 cytosine deaminase; Validated; Region: PRK07572 977880014787 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 977880014788 active site 977880014789 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 977880014790 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880014791 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 977880014792 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 977880014793 active site 977880014794 Protein of unknown function (DUF1688); Region: DUF1688; pfam07958 977880014795 hypothetical protein; Validated; Region: PRK07198 977880014796 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 977880014797 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 977880014798 dimerization interface [polypeptide binding]; other site 977880014799 active site 977880014800 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 977880014801 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 977880014802 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014803 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 977880014804 dimerization interface [polypeptide binding]; other site 977880014805 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 977880014806 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 977880014807 VCBS repeat; Region: VCBS_repeat; TIGR01965 977880014808 VCBS repeat; Region: VCBS_repeat; TIGR01965 977880014809 VCBS repeat; Region: VCBS_repeat; TIGR01965 977880014810 VCBS repeat; Region: VCBS_repeat; TIGR01965 977880014811 VCBS repeat; Region: VCBS_repeat; TIGR01965 977880014812 VCBS repeat; Region: VCBS_repeat; TIGR01965 977880014813 VCBS repeat; Region: VCBS_repeat; TIGR01965 977880014814 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 977880014815 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 977880014816 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880014817 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880014818 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 977880014819 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 977880014820 putative active site [active] 977880014821 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 977880014822 Walker A/P-loop; other site 977880014823 ATP binding site [chemical binding]; other site 977880014824 Q-loop/lid; other site 977880014825 ABC transporter signature motif; other site 977880014826 Walker B; other site 977880014827 D-loop; other site 977880014828 H-loop/switch region; other site 977880014829 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 977880014830 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 977880014831 substrate binding pocket [chemical binding]; other site 977880014832 membrane-bound complex binding site; other site 977880014833 hinge residues; other site 977880014834 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 977880014835 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 977880014836 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 977880014837 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 977880014838 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 977880014839 inhibitor-cofactor binding pocket; inhibition site 977880014840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880014841 catalytic residue [active] 977880014842 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 977880014843 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 977880014844 Ligand binding site; other site 977880014845 Putative Catalytic site; other site 977880014846 DXD motif; other site 977880014847 putative formyltransferase; Provisional; Region: PRK06988 977880014848 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 977880014849 active site 977880014850 substrate binding site [chemical binding]; other site 977880014851 cosubstrate binding site; other site 977880014852 catalytic site [active] 977880014853 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 977880014854 active site 977880014855 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 977880014856 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 977880014857 NAD binding site [chemical binding]; other site 977880014858 substrate binding site [chemical binding]; other site 977880014859 active site 977880014860 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 977880014861 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 977880014862 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 977880014863 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 977880014864 Soluble P-type ATPase [General function prediction only]; Region: COG4087 977880014865 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 977880014866 dimer interface [polypeptide binding]; other site 977880014867 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 977880014868 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 977880014869 dimer interface [polypeptide binding]; other site 977880014870 phosphorylation site [posttranslational modification] 977880014871 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 977880014872 ATP binding site [chemical binding]; other site 977880014873 Mg2+ binding site [ion binding]; other site 977880014874 G-X-G motif; other site 977880014875 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 977880014876 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 977880014877 active site 977880014878 phosphorylation site [posttranslational modification] 977880014879 intermolecular recognition site; other site 977880014880 dimerization interface [polypeptide binding]; other site 977880014881 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 977880014882 DNA binding site [nucleotide binding] 977880014883 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 977880014884 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 977880014885 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07819 977880014886 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 977880014887 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 977880014888 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880014889 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014890 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 977880014891 putative dimerization interface [polypeptide binding]; other site 977880014892 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 977880014893 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 977880014894 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 977880014895 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 977880014896 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 977880014897 Ligand binding site; other site 977880014898 Putative Catalytic site; other site 977880014899 DXD motif; other site 977880014900 acyl carrier protein; Provisional; Region: PRK09184 977880014901 Predicted membrane protein [Function unknown]; Region: COG4648 977880014902 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 977880014903 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880014904 acyl-activating enzyme (AAE) consensus motif; other site 977880014905 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880014906 AMP binding site [chemical binding]; other site 977880014907 active site 977880014908 CoA binding site [chemical binding]; other site 977880014909 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 977880014910 active site 2 [active] 977880014911 active site 1 [active] 977880014912 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 977880014913 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 977880014914 putative acyl-acceptor binding pocket; other site 977880014915 Predicted exporter [General function prediction only]; Region: COG4258 977880014916 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 977880014917 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 977880014918 NodB motif; other site 977880014919 putative active site [active] 977880014920 putative catalytic site [active] 977880014921 putative Zn binding site [ion binding]; other site 977880014922 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 977880014923 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 977880014924 active site 977880014925 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 977880014926 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 977880014927 putative active site 1 [active] 977880014928 fumarylacetoacetase; Region: PLN02856 977880014929 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 977880014930 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 977880014931 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 977880014932 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 977880014933 non-specific DNA binding site [nucleotide binding]; other site 977880014934 salt bridge; other site 977880014935 sequence-specific DNA binding site [nucleotide binding]; other site 977880014936 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 977880014937 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880014938 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880014939 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 977880014940 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 977880014941 acyl-activating enzyme (AAE) consensus motif; other site 977880014942 putative AMP binding site [chemical binding]; other site 977880014943 putative active site [active] 977880014944 putative CoA binding site [chemical binding]; other site 977880014945 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 977880014946 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880014947 active site 977880014948 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 977880014949 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 977880014950 substrate binding site [chemical binding]; other site 977880014951 oxyanion hole (OAH) forming residues; other site 977880014952 trimer interface [polypeptide binding]; other site 977880014953 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 977880014954 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880014955 NAD(P) binding site [chemical binding]; other site 977880014956 active site 977880014957 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880014958 MarR family; Region: MarR_2; pfam12802 977880014959 GYD domain; Region: GYD; pfam08734 977880014960 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 977880014961 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 977880014962 Domain of unknown function DUF20; Region: UPF0118; pfam01594 977880014963 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 977880014964 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 977880014965 N-terminal plug; other site 977880014966 ligand-binding site [chemical binding]; other site 977880014967 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 977880014968 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 977880014969 catalytic loop [active] 977880014970 iron binding site [ion binding]; other site 977880014971 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 977880014972 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 977880014973 [4Fe-4S] binding site [ion binding]; other site 977880014974 molybdopterin cofactor binding site; other site 977880014975 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_CT_Formate-Dh_H; cd02790 977880014976 molybdopterin cofactor binding site; other site 977880014977 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 977880014978 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 977880014979 putative dimer interface [polypeptide binding]; other site 977880014980 [2Fe-2S] cluster binding site [ion binding]; other site 977880014981 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 977880014982 SLBB domain; Region: SLBB; pfam10531 977880014983 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 977880014984 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 977880014985 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880014986 putative substrate translocation pore; other site 977880014987 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880014988 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014989 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 977880014990 putative dimerization interface [polypeptide binding]; other site 977880014991 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880014992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880014993 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 977880014994 putative dimerization interface [polypeptide binding]; other site 977880014995 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 977880014996 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 977880014997 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 977880014998 putative NAD(P) binding site [chemical binding]; other site 977880014999 active site 977880015000 DoxX-like family; Region: DoxX_3; pfam13781 977880015001 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 977880015002 dimanganese center [ion binding]; other site 977880015003 manganese transport protein MntH; Reviewed; Region: PRK00701 977880015004 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 977880015005 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 977880015006 PAS domain; Region: PAS_9; pfam13426 977880015007 putative active site [active] 977880015008 heme pocket [chemical binding]; other site 977880015009 formyl-coenzyme A transferase; Provisional; Region: PRK05398 977880015010 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880015011 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 977880015012 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 977880015013 PYR/PP interface [polypeptide binding]; other site 977880015014 dimer interface [polypeptide binding]; other site 977880015015 TPP binding site [chemical binding]; other site 977880015016 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 977880015017 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 977880015018 TPP-binding site; other site 977880015019 dimer interface [polypeptide binding]; other site 977880015020 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 977880015021 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880015022 putative substrate translocation pore; other site 977880015023 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 977880015024 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 977880015025 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 977880015026 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 977880015027 ligand binding site [chemical binding]; other site 977880015028 homodimer interface [polypeptide binding]; other site 977880015029 NAD(P) binding site [chemical binding]; other site 977880015030 trimer interface B [polypeptide binding]; other site 977880015031 trimer interface A [polypeptide binding]; other site 977880015032 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 977880015033 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 977880015034 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 977880015035 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 977880015036 formyl-coenzyme A transferase; Provisional; Region: PRK05398 977880015037 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880015038 Transcriptional regulators [Transcription]; Region: GntR; COG1802 977880015039 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880015040 DNA-binding site [nucleotide binding]; DNA binding site 977880015041 FCD domain; Region: FCD; pfam07729 977880015042 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 977880015043 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 977880015044 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 977880015045 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 977880015046 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 977880015047 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 977880015048 Transcriptional regulators [Transcription]; Region: GntR; COG1802 977880015049 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880015050 DNA-binding site [nucleotide binding]; DNA binding site 977880015051 FCD domain; Region: FCD; pfam07729 977880015052 EamA-like transporter family; Region: EamA; pfam00892 977880015053 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 977880015054 daunorubicin C-13 ketoreductase (KR), classical (c)-like SDRs; Region: DR_C-13_KR_SDR_c_like; cd08951 977880015055 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 977880015056 putative NAD(P) binding site [chemical binding]; other site 977880015057 active site 977880015058 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 977880015059 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 977880015060 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 977880015061 Chromate transporter; Region: Chromate_transp; pfam02417 977880015062 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880015063 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880015064 active site 977880015065 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 977880015066 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 977880015067 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 977880015068 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 977880015069 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 977880015070 dimer interface [polypeptide binding]; other site 977880015071 active site 977880015072 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 977880015073 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : enzyme 977880015074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880015075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880015076 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 977880015077 putative dimerization interface [polypeptide binding]; other site 977880015078 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880015079 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880015080 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 977880015081 dimerization interface [polypeptide binding]; other site 977880015082 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 977880015083 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 977880015084 metal binding site [ion binding]; metal-binding site 977880015085 putative dimer interface [polypeptide binding]; other site 977880015086 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880015087 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 977880015088 CCC1-related family of proteins; Region: CCC1_like; cl00278 977880015089 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 977880015090 putative uracil binding site [chemical binding]; other site 977880015091 putative active site [active] 977880015092 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880015093 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 977880015094 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880015095 choline dehydrogenase; Validated; Region: PRK02106 977880015096 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 977880015097 metabolite-proton symporter; Region: 2A0106; TIGR00883 977880015098 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880015099 putative substrate translocation pore; other site 977880015100 Transcriptional regulators [Transcription]; Region: GntR; COG1802 977880015101 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880015102 DNA-binding site [nucleotide binding]; DNA binding site 977880015103 FCD domain; Region: FCD; pfam07729 977880015104 BON domain; Region: BON; pfam04972 977880015105 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 977880015106 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 977880015107 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 977880015108 Mechanosensitive ion channel; Region: MS_channel; pfam00924 977880015109 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880015110 MarR family; Region: MarR_2; pfam12802 977880015111 Uncharacterized conserved protein [Function unknown]; Region: COG2128 977880015112 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 977880015113 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 977880015114 Coenzyme A binding pocket [chemical binding]; other site 977880015115 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 977880015116 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 977880015117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880015118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880015119 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 977880015120 dimerization interface [polypeptide binding]; other site 977880015121 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 977880015122 FMN binding site [chemical binding]; other site 977880015123 substrate binding site [chemical binding]; other site 977880015124 putative catalytic residue [active] 977880015125 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 977880015126 S-adenosylmethionine binding site [chemical binding]; other site 977880015127 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 977880015128 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 977880015129 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880015130 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880015131 Outer membrane efflux protein; Region: OEP; pfam02321 977880015132 Outer membrane efflux protein; Region: OEP; pfam02321 977880015133 PemK-like protein; Region: PemK; pfam02452 977880015134 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 977880015135 active site residue [active] 977880015136 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 977880015137 active site residue [active] 977880015138 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 977880015139 active site residue [active] 977880015140 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 977880015141 active site residue [active] 977880015142 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 977880015143 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880015144 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 977880015145 active site 977880015146 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 977880015147 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 977880015148 dimer interface [polypeptide binding]; other site 977880015149 active site 977880015150 non-prolyl cis peptide bond; other site 977880015151 insertion regions; other site 977880015152 NMT1-like family; Region: NMT1_2; pfam13379 977880015153 NMT1/THI5 like; Region: NMT1; pfam09084 977880015154 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 977880015155 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 977880015156 dimer interface [polypeptide binding]; other site 977880015157 conserved gate region; other site 977880015158 putative PBP binding loops; other site 977880015159 ABC-ATPase subunit interface; other site 977880015160 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 977880015161 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 977880015162 Walker A/P-loop; other site 977880015163 ATP binding site [chemical binding]; other site 977880015164 Q-loop/lid; other site 977880015165 ABC transporter signature motif; other site 977880015166 Walker B; other site 977880015167 D-loop; other site 977880015168 H-loop/switch region; other site 977880015169 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 977880015170 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 977880015171 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 977880015172 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 977880015173 PYR/PP interface [polypeptide binding]; other site 977880015174 dimer interface [polypeptide binding]; other site 977880015175 TPP binding site [chemical binding]; other site 977880015176 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 977880015177 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 977880015178 TPP-binding site; other site 977880015179 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 977880015180 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 977880015181 benzoate transport; Region: 2A0115; TIGR00895 977880015182 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880015183 putative substrate translocation pore; other site 977880015184 amidase; Provisional; Region: PRK06170 977880015185 Amidase; Region: Amidase; cl11426 977880015186 Predicted transcriptional regulators [Transcription]; Region: COG1725 977880015187 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880015188 DNA-binding site [nucleotide binding]; DNA binding site 977880015189 FCD domain; Region: FCD; pfam07729 977880015190 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 977880015191 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 977880015192 catalytic loop [active] 977880015193 iron binding site [ion binding]; other site 977880015194 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 977880015195 FAD binding pocket [chemical binding]; other site 977880015196 FAD binding motif [chemical binding]; other site 977880015197 phosphate binding motif [ion binding]; other site 977880015198 beta-alpha-beta structure motif; other site 977880015199 NAD binding pocket [chemical binding]; other site 977880015200 Domain of unknown function (DUF336); Region: DUF336; pfam03928 977880015201 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 977880015202 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 977880015203 NAD(P) binding site [chemical binding]; other site 977880015204 catalytic residues [active] 977880015205 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 977880015206 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 977880015207 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 977880015208 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 977880015209 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 977880015210 catalytic loop [active] 977880015211 iron binding site [ion binding]; other site 977880015212 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 977880015213 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 977880015214 catalytic loop [active] 977880015215 iron binding site [ion binding]; other site 977880015216 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 977880015217 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 977880015218 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 977880015219 metal ion-dependent adhesion site (MIDAS); other site 977880015220 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 977880015221 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 977880015222 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 977880015223 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 977880015224 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 977880015225 putative DNA binding site [nucleotide binding]; other site 977880015226 putative Zn2+ binding site [ion binding]; other site 977880015227 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880015228 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 977880015229 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 977880015230 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880015231 DNA-binding site [nucleotide binding]; DNA binding site 977880015232 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 977880015233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880015234 homodimer interface [polypeptide binding]; other site 977880015235 catalytic residue [active] 977880015236 SnoaL-like domain; Region: SnoaL_2; pfam12680 977880015237 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 977880015238 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 977880015239 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 977880015240 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 977880015241 ATP-dependent DNA ligase; Validated; Region: PRK09247 977880015242 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 977880015243 active site 977880015244 DNA binding site [nucleotide binding] 977880015245 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 977880015246 DNA binding site [nucleotide binding] 977880015247 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 977880015248 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 977880015249 ATP binding site [chemical binding]; other site 977880015250 putative Mg++ binding site [ion binding]; other site 977880015251 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 977880015252 nucleotide binding region [chemical binding]; other site 977880015253 ATP-binding site [chemical binding]; other site 977880015254 DEAD/H associated; Region: DEAD_assoc; pfam08494 977880015255 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 977880015256 putative active site [active] 977880015257 putative metal binding site [ion binding]; other site 977880015258 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 977880015259 short chain dehydrogenase; Provisional; Region: PRK07035 977880015260 classical (c) SDRs; Region: SDR_c; cd05233 977880015261 NAD(P) binding site [chemical binding]; other site 977880015262 active site 977880015263 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880015264 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880015265 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 977880015266 putative effector binding pocket; other site 977880015267 dimerization interface [polypeptide binding]; other site 977880015268 elongation factor G; Reviewed; Region: PRK13351 977880015269 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 977880015270 G1 box; other site 977880015271 putative GEF interaction site [polypeptide binding]; other site 977880015272 GTP/Mg2+ binding site [chemical binding]; other site 977880015273 Switch I region; other site 977880015274 G2 box; other site 977880015275 G3 box; other site 977880015276 Switch II region; other site 977880015277 G4 box; other site 977880015278 G5 box; other site 977880015279 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 977880015280 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 977880015281 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 977880015282 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 977880015283 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 977880015284 Na binding site [ion binding]; other site 977880015285 Protein of unknown function, DUF485; Region: DUF485; pfam04341 977880015286 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 977880015287 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 977880015288 active site 977880015289 AMP binding site [chemical binding]; other site 977880015290 homodimer interface [polypeptide binding]; other site 977880015291 acyl-activating enzyme (AAE) consensus motif; other site 977880015292 CoA binding site [chemical binding]; other site 977880015293 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 977880015294 Phenylacetic acid degradation proteins PaaZ (Escherichia coli) and PaaN (Pseudomonas putida)-like; Region: ALDH_PAD-PaaZ; cd07127 977880015295 NADP binding site [chemical binding]; other site 977880015296 catalytic residues [active] 977880015297 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 977880015298 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 977880015299 FAD binding pocket [chemical binding]; other site 977880015300 FAD binding motif [chemical binding]; other site 977880015301 phosphate binding motif [ion binding]; other site 977880015302 beta-alpha-beta structure motif; other site 977880015303 NAD(p) ribose binding residues [chemical binding]; other site 977880015304 NAD binding pocket [chemical binding]; other site 977880015305 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 977880015306 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 977880015307 catalytic loop [active] 977880015308 iron binding site [ion binding]; other site 977880015309 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 977880015310 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 977880015311 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 977880015312 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 977880015313 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 977880015314 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 977880015315 PaaX-like protein; Region: PaaX; pfam07848 977880015316 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 977880015317 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 977880015318 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 977880015319 4Fe-4S binding domain; Region: Fer4; pfam00037 977880015320 4Fe-4S binding domain; Region: Fer4; pfam00037 977880015321 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 977880015322 FAD binding pocket [chemical binding]; other site 977880015323 conserved FAD binding motif [chemical binding]; other site 977880015324 phosphate binding motif [ion binding]; other site 977880015325 beta-alpha-beta structure motif; other site 977880015326 NAD binding pocket [chemical binding]; other site 977880015327 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 977880015328 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 977880015329 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 977880015330 substrate binding site [chemical binding]; other site 977880015331 oxyanion hole (OAH) forming residues; other site 977880015332 trimer interface [polypeptide binding]; other site 977880015333 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 977880015334 trimer interface [polypeptide binding]; other site 977880015335 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 977880015336 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 977880015337 non-specific DNA binding site [nucleotide binding]; other site 977880015338 salt bridge; other site 977880015339 sequence-specific DNA binding site [nucleotide binding]; other site 977880015340 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 977880015341 ADP binding site [chemical binding]; other site 977880015342 magnesium binding site [ion binding]; other site 977880015343 putative shikimate binding site; other site 977880015344 aldehyde dehydrogenase; Provisional; Region: PRK11903 977880015345 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 977880015346 NAD(P) binding site [chemical binding]; other site 977880015347 catalytic residues [active] 977880015348 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880015349 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 977880015350 acyl-activating enzyme (AAE) consensus motif; other site 977880015351 AMP binding site [chemical binding]; other site 977880015352 active site 977880015353 CoA binding site [chemical binding]; other site 977880015354 benzoate transport; Region: 2A0115; TIGR00895 977880015355 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880015356 putative substrate translocation pore; other site 977880015357 Isochorismatase family; Region: Isochorismatase; pfam00857 977880015358 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 977880015359 catalytic triad [active] 977880015360 dimer interface [polypeptide binding]; other site 977880015361 conserved cis-peptide bond; other site 977880015362 Isochorismatase family; Region: Isochorismatase; pfam00857 977880015363 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 977880015364 catalytic triad [active] 977880015365 dimer interface [polypeptide binding]; other site 977880015366 conserved cis-peptide bond; other site 977880015367 LysR family transcriptional regulator; Provisional; Region: PRK14997 977880015368 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880015369 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 977880015370 putative effector binding pocket; other site 977880015371 putative dimerization interface [polypeptide binding]; other site 977880015372 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 977880015373 rRNA binding site [nucleotide binding]; other site 977880015374 predicted 30S ribosome binding site; other site 977880015375 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 977880015376 DNA-binding site [nucleotide binding]; DNA binding site 977880015377 RNA-binding motif; other site 977880015378 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 977880015379 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 977880015380 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 977880015381 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 977880015382 dimerization interface [polypeptide binding]; other site 977880015383 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 977880015384 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880015385 dimer interface [polypeptide binding]; other site 977880015386 putative CheW interface [polypeptide binding]; other site 977880015387 Phasin protein; Region: Phasin_2; pfam09361 977880015388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 977880015389 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 977880015390 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_C39G; cd02423 977880015391 putative active site [active] 977880015392 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 977880015393 glutamate dehydrogenase; Provisional; Region: PRK09414 977880015394 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 977880015395 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 977880015396 NAD(P) binding site [chemical binding]; other site 977880015397 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 977880015398 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 977880015399 FeS/SAM binding site; other site 977880015400 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 977880015401 CoenzymeA binding site [chemical binding]; other site 977880015402 subunit interaction site [polypeptide binding]; other site 977880015403 PHB binding site; other site 977880015404 Fatty acid desaturase; Region: FA_desaturase; pfam00487 977880015405 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 977880015406 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 977880015407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880015408 homodimer interface [polypeptide binding]; other site 977880015409 catalytic residue [active] 977880015410 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880015411 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880015412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880015413 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 977880015414 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 977880015415 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 977880015416 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 977880015417 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 977880015418 NAD(P) binding site [chemical binding]; other site 977880015419 catalytic residues [active] 977880015420 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 977880015421 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 977880015422 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 977880015423 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880015424 DNA-binding site [nucleotide binding]; DNA binding site 977880015425 FCD domain; Region: FCD; pfam07729 977880015426 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 977880015427 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 977880015428 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 977880015429 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880015430 Walker A/P-loop; other site 977880015431 ATP binding site [chemical binding]; other site 977880015432 Q-loop/lid; other site 977880015433 ABC transporter signature motif; other site 977880015434 Walker B; other site 977880015435 D-loop; other site 977880015436 H-loop/switch region; other site 977880015437 TOBE domain; Region: TOBE_2; pfam08402 977880015438 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 977880015439 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 977880015440 dimer interface [polypeptide binding]; other site 977880015441 conserved gate region; other site 977880015442 putative PBP binding loops; other site 977880015443 ABC-ATPase subunit interface; other site 977880015444 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 977880015445 dimer interface [polypeptide binding]; other site 977880015446 conserved gate region; other site 977880015447 putative PBP binding loops; other site 977880015448 ABC-ATPase subunit interface; other site 977880015449 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 977880015450 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 977880015451 catalytic residue [active] 977880015452 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 977880015453 EamA-like transporter family; Region: EamA; pfam00892 977880015454 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 977880015455 hydroxyglutarate oxidase; Provisional; Region: PRK11728 977880015456 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 977880015457 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 977880015458 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 977880015459 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 977880015460 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880015461 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 977880015462 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 977880015463 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 977880015464 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 977880015465 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 977880015466 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 977880015467 Cytochrome c; Region: Cytochrom_C; pfam00034 977880015468 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 977880015469 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 977880015470 NAD(P) binding site [chemical binding]; other site 977880015471 catalytic residues [active] 977880015472 Protein of unknown function (DUF779); Region: DUF779; pfam05610 977880015473 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 977880015474 Transglycosylase; Region: Transgly; pfam00912 977880015475 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 977880015476 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 977880015477 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 977880015478 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 977880015479 transmembrane helices; other site 977880015480 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 977880015481 GTP cyclohydrolase I; Provisional; Region: PLN03044 977880015482 active site 977880015483 Sensors of blue-light using FAD; Region: BLUF; pfam04940 977880015484 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880015485 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 977880015486 active site 977880015487 phosphorylation site [posttranslational modification] 977880015488 intermolecular recognition site; other site 977880015489 dimerization interface [polypeptide binding]; other site 977880015490 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 977880015491 DNA binding residues [nucleotide binding] 977880015492 dimerization interface [polypeptide binding]; other site 977880015493 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 977880015494 dimer interface [polypeptide binding]; other site 977880015495 phosphorylation site [posttranslational modification] 977880015496 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 977880015497 ATP binding site [chemical binding]; other site 977880015498 Mg2+ binding site [ion binding]; other site 977880015499 G-X-G motif; other site 977880015500 Response regulator receiver domain; Region: Response_reg; pfam00072 977880015501 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 977880015502 active site 977880015503 phosphorylation site [posttranslational modification] 977880015504 intermolecular recognition site; other site 977880015505 dimerization interface [polypeptide binding]; other site 977880015506 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880015507 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880015508 putative substrate translocation pore; other site 977880015509 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880015510 classical (c) SDRs; Region: SDR_c; cd05233 977880015511 NAD(P) binding site [chemical binding]; other site 977880015512 active site 977880015513 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 977880015514 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880015515 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880015516 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 977880015517 [4Fe-4S] binding site [ion binding]; other site 977880015518 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 977880015519 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 977880015520 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 977880015521 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 977880015522 molybdopterin cofactor binding site; other site 977880015523 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 977880015524 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 977880015525 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 977880015526 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 977880015527 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 977880015528 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 977880015529 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 977880015530 Clp amino terminal domain; Region: Clp_N; pfam02861 977880015531 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 977880015532 Walker A motif; other site 977880015533 ATP binding site [chemical binding]; other site 977880015534 Walker B motif; other site 977880015535 arginine finger; other site 977880015536 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 977880015537 Walker A motif; other site 977880015538 ATP binding site [chemical binding]; other site 977880015539 Walker B motif; other site 977880015540 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 977880015541 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 977880015542 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 977880015543 putative molybdopterin cofactor binding site [chemical binding]; other site 977880015544 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 977880015545 putative molybdopterin cofactor binding site; other site 977880015546 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 977880015547 intersubunit interface [polypeptide binding]; other site 977880015548 active site 977880015549 zinc binding site [ion binding]; other site 977880015550 Na+ binding site [ion binding]; other site 977880015551 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 977880015552 Phosphoglycerate kinase; Region: PGK; pfam00162 977880015553 substrate binding site [chemical binding]; other site 977880015554 hinge regions; other site 977880015555 ADP binding site [chemical binding]; other site 977880015556 catalytic site [active] 977880015557 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 977880015558 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 977880015559 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 977880015560 phosphoglycolate phosphatase; Provisional; Region: PRK13222 977880015561 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 977880015562 motif II; other site 977880015563 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 977880015564 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 977880015565 TPP-binding site [chemical binding]; other site 977880015566 dimer interface [polypeptide binding]; other site 977880015567 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 977880015568 PYR/PP interface [polypeptide binding]; other site 977880015569 dimer interface [polypeptide binding]; other site 977880015570 TPP binding site [chemical binding]; other site 977880015571 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 977880015572 phosphoribulokinase; Provisional; Region: PRK15453 977880015573 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 977880015574 AMP binding site [chemical binding]; other site 977880015575 metal binding site [ion binding]; metal-binding site 977880015576 active site 977880015577 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 977880015578 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 977880015579 substrate binding site [chemical binding]; other site 977880015580 hexamer interface [polypeptide binding]; other site 977880015581 metal binding site [ion binding]; metal-binding site 977880015582 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 977880015583 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 977880015584 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 977880015585 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 977880015586 Walker A motif; other site 977880015587 ATP binding site [chemical binding]; other site 977880015588 Walker B motif; other site 977880015589 arginine finger; other site 977880015590 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 977880015591 multimerization interface [polypeptide binding]; other site 977880015592 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 977880015593 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 977880015594 homodimer interface [polypeptide binding]; other site 977880015595 active site 977880015596 heterodimer interface [polypeptide binding]; other site 977880015597 catalytic residue [active] 977880015598 metal binding site [ion binding]; metal-binding site 977880015599 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880015600 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880015601 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 977880015602 putative dimerization interface [polypeptide binding]; other site 977880015603 YCII-related domain; Region: YCII; cl00999 977880015604 Predicted periplasmic protein (DUF2092); Region: DUF2092; pfam09865 977880015605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 977880015606 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 977880015607 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 977880015608 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880015609 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 977880015610 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 977880015611 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 977880015612 Helix-turn-helix domain; Region: HTH_18; pfam12833 977880015613 Aminoglycoside 3-N-acetyltransferase; Region: Antibiotic_NAT; pfam02522 977880015614 short chain dehydrogenase; Provisional; Region: PRK07478 977880015615 classical (c) SDRs; Region: SDR_c; cd05233 977880015616 NAD(P) binding site [chemical binding]; other site 977880015617 active site 977880015618 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880015619 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880015620 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 977880015621 putative effector binding pocket; other site 977880015622 dimerization interface [polypeptide binding]; other site 977880015623 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 977880015624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880015625 NAD(P) binding site [chemical binding]; other site 977880015626 active site 977880015627 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 977880015628 dimerization interface [polypeptide binding]; other site 977880015629 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880015630 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 977880015631 dimer interface [polypeptide binding]; other site 977880015632 phosphorylation site [posttranslational modification] 977880015633 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 977880015634 ATP binding site [chemical binding]; other site 977880015635 Mg2+ binding site [ion binding]; other site 977880015636 G-X-G motif; other site 977880015637 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 977880015638 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 977880015639 active site 977880015640 phosphorylation site [posttranslational modification] 977880015641 intermolecular recognition site; other site 977880015642 dimerization interface [polypeptide binding]; other site 977880015643 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 977880015644 Walker A motif; other site 977880015645 ATP binding site [chemical binding]; other site 977880015646 Walker B motif; other site 977880015647 arginine finger; other site 977880015648 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880015649 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 977880015650 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880015651 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 977880015652 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 977880015653 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 977880015654 Fusaric acid resistance protein family; Region: FUSC; pfam04632 977880015655 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 977880015656 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 977880015657 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880015658 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 977880015659 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880015660 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 977880015661 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 977880015662 FeS/SAM binding site; other site 977880015663 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 977880015664 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 977880015665 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 977880015666 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880015667 DNA-binding site [nucleotide binding]; DNA binding site 977880015668 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 977880015669 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880015670 homodimer interface [polypeptide binding]; other site 977880015671 catalytic residue [active] 977880015672 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 977880015673 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 977880015674 dimer interface [polypeptide binding]; other site 977880015675 putative functional site; other site 977880015676 putative MPT binding site; other site 977880015677 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 977880015678 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 977880015679 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 977880015680 putative molybdopterin cofactor binding site [chemical binding]; other site 977880015681 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 977880015682 putative molybdopterin cofactor binding site; other site 977880015683 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 977880015684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880015685 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 977880015686 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880015687 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880015688 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 977880015689 putative active site [active] 977880015690 putative catalytic site [active] 977880015691 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880015692 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880015693 active site 977880015694 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 977880015695 putative active site [active] 977880015696 putative catalytic site [active] 977880015697 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 977880015698 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 977880015699 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880015700 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 977880015701 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880015702 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 977880015703 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880015704 enoyl-CoA hydratase; Provisional; Region: PRK06688 977880015705 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 977880015706 substrate binding site [chemical binding]; other site 977880015707 oxyanion hole (OAH) forming residues; other site 977880015708 trimer interface [polypeptide binding]; other site 977880015709 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 977880015710 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 977880015711 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880015712 active site 977880015713 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880015714 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880015715 active site 977880015716 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880015717 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880015718 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 977880015719 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 977880015720 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 977880015721 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 977880015722 putative ADP-binding pocket [chemical binding]; other site 977880015723 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 977880015724 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 977880015725 TM-ABC transporter signature motif; other site 977880015726 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 977880015727 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 977880015728 TM-ABC transporter signature motif; other site 977880015729 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 977880015730 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 977880015731 Walker A/P-loop; other site 977880015732 ATP binding site [chemical binding]; other site 977880015733 Q-loop/lid; other site 977880015734 ABC transporter signature motif; other site 977880015735 Walker B; other site 977880015736 D-loop; other site 977880015737 H-loop/switch region; other site 977880015738 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 977880015739 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 977880015740 Walker A/P-loop; other site 977880015741 ATP binding site [chemical binding]; other site 977880015742 Q-loop/lid; other site 977880015743 ABC transporter signature motif; other site 977880015744 Walker B; other site 977880015745 D-loop; other site 977880015746 H-loop/switch region; other site 977880015747 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_3; cd06336 977880015748 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 977880015749 putative ligand binding site [chemical binding]; other site 977880015750 FecR protein; Region: FecR; pfam04773 977880015751 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880015752 metal binding site [ion binding]; metal-binding site 977880015753 active site 977880015754 I-site; other site 977880015755 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 977880015756 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 977880015757 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 977880015758 HAMP domain; Region: HAMP; pfam00672 977880015759 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880015760 dimer interface [polypeptide binding]; other site 977880015761 putative CheW interface [polypeptide binding]; other site 977880015762 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 977880015763 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 977880015764 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 977880015765 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 977880015766 TPR repeat; Region: TPR_11; pfam13414 977880015767 binding surface 977880015768 TPR motif; other site 977880015769 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 977880015770 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 977880015771 putative binding surface; other site 977880015772 active site 977880015773 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 977880015774 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 977880015775 ATP binding site [chemical binding]; other site 977880015776 Mg2+ binding site [ion binding]; other site 977880015777 G-X-G motif; other site 977880015778 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 977880015779 Response regulator receiver domain; Region: Response_reg; pfam00072 977880015780 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 977880015781 active site 977880015782 phosphorylation site [posttranslational modification] 977880015783 intermolecular recognition site; other site 977880015784 dimerization interface [polypeptide binding]; other site 977880015785 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 977880015786 cheY-homologous receiver domain; Region: REC; smart00448 977880015787 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 977880015788 phosphorylation site [posttranslational modification] 977880015789 intermolecular recognition site; other site 977880015790 CheB methylesterase; Region: CheB_methylest; pfam01339 977880015791 Response regulator receiver domain; Region: Response_reg; pfam00072 977880015792 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 977880015793 active site 977880015794 phosphorylation site [posttranslational modification] 977880015795 intermolecular recognition site; other site 977880015796 dimerization interface [polypeptide binding]; other site 977880015797 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 977880015798 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880015799 metal binding site [ion binding]; metal-binding site 977880015800 active site 977880015801 I-site; other site 977880015802 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 977880015803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 977880015804 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 977880015805 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 977880015806 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 977880015807 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 977880015808 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 977880015809 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 977880015810 tetramerization interface [polypeptide binding]; other site 977880015811 NAD(P) binding site [chemical binding]; other site 977880015812 catalytic residues [active] 977880015813 Predicted small integral membrane protein [Function unknown]; Region: COG5605 977880015814 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 977880015815 Subunit I/III interface [polypeptide binding]; other site 977880015816 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 977880015817 Subunit I/III interface [polypeptide binding]; other site 977880015818 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 977880015819 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 977880015820 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 977880015821 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 977880015822 Cytochrome c; Region: Cytochrom_C; pfam00034 977880015823 Rubredoxin [Energy production and conversion]; Region: COG1773 977880015824 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 977880015825 iron binding site [ion binding]; other site 977880015826 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 977880015827 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 977880015828 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 977880015829 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 977880015830 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 977880015831 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 977880015832 ligand binding site [chemical binding]; other site 977880015833 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880015834 metabolite-proton symporter; Region: 2A0106; TIGR00883 977880015835 putative substrate translocation pore; other site 977880015836 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 977880015837 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 977880015838 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 977880015839 Transposase; Region: HTH_Tnp_1; pfam01527 977880015840 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880015841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880015842 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 977880015843 dimerization interface [polypeptide binding]; other site 977880015844 transcriptional regulator RcsB; Provisional; Region: PRK10840 977880015845 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 977880015846 active site 977880015847 phosphorylation site [posttranslational modification] 977880015848 intermolecular recognition site; other site 977880015849 dimerization interface [polypeptide binding]; other site 977880015850 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 977880015851 DNA binding residues [nucleotide binding] 977880015852 dimerization interface [polypeptide binding]; other site 977880015853 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880015854 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 977880015855 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880015856 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880015857 putative substrate translocation pore; other site 977880015858 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880015859 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 977880015860 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 977880015861 Autotransporter beta-domain; Region: Autotransporter; smart00869 977880015862 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880015863 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 977880015864 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 977880015865 catalytic residue [active] 977880015866 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 977880015867 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880015868 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 977880015869 putative dimerization interface [polypeptide binding]; other site 977880015870 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 977880015871 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 977880015872 dimer interface [polypeptide binding]; other site 977880015873 phosphorylation site [posttranslational modification] 977880015874 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 977880015875 ATP binding site [chemical binding]; other site 977880015876 Mg2+ binding site [ion binding]; other site 977880015877 G-X-G motif; other site 977880015878 Response regulator receiver domain; Region: Response_reg; pfam00072 977880015879 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 977880015880 active site 977880015881 phosphorylation site [posttranslational modification] 977880015882 intermolecular recognition site; other site 977880015883 dimerization interface [polypeptide binding]; other site 977880015884 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 977880015885 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880015886 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 977880015887 DNA binding residues [nucleotide binding] 977880015888 dimerization interface [polypeptide binding]; other site 977880015889 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880015890 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 977880015891 active site 977880015892 phosphorylation site [posttranslational modification] 977880015893 intermolecular recognition site; other site 977880015894 dimerization interface [polypeptide binding]; other site 977880015895 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 977880015896 DNA binding residues [nucleotide binding] 977880015897 dimerization interface [polypeptide binding]; other site 977880015898 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 977880015899 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 977880015900 ATP binding site [chemical binding]; other site 977880015901 Mg2+ binding site [ion binding]; other site 977880015902 G-X-G motif; other site 977880015903 Response regulator receiver domain; Region: Response_reg; pfam00072 977880015904 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 977880015905 active site 977880015906 phosphorylation site [posttranslational modification] 977880015907 intermolecular recognition site; other site 977880015908 dimerization interface [polypeptide binding]; other site 977880015909 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 977880015910 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 977880015911 PapC N-terminal domain; Region: PapC_N; pfam13954 977880015912 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 977880015913 PapC C-terminal domain; Region: PapC_C; pfam13953 977880015914 putative chaperone protein EcpD; Provisional; Region: PRK09926 977880015915 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 977880015916 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 977880015917 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 977880015918 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 977880015919 dimerization interface [polypeptide binding]; other site 977880015920 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 977880015921 ATP binding site [chemical binding]; other site 977880015922 Mg2+ binding site [ion binding]; other site 977880015923 G-X-G motif; other site 977880015924 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 977880015925 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 977880015926 active site 977880015927 phosphorylation site [posttranslational modification] 977880015928 intermolecular recognition site; other site 977880015929 dimerization interface [polypeptide binding]; other site 977880015930 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 977880015931 DNA binding site [nucleotide binding] 977880015932 enterobactin receptor protein; Provisional; Region: PRK13483 977880015933 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 977880015934 N-terminal plug; other site 977880015935 ligand-binding site [chemical binding]; other site 977880015936 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 977880015937 Transposase; Region: DEDD_Tnp_IS110; pfam01548 977880015938 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 977880015939 trehalase; Provisional; Region: treF; PRK13270 977880015940 Trehalase; Region: Trehalase; cl17346 977880015941 putative transporter; Provisional; Region: PRK10504 977880015942 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880015943 putative substrate translocation pore; other site 977880015944 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 977880015945 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 977880015946 N-terminal plug; other site 977880015947 ligand-binding site [chemical binding]; other site 977880015948 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 977880015949 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 977880015950 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 977880015951 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880015952 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 977880015953 dimerization interface [polypeptide binding]; other site 977880015954 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 977880015955 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 977880015956 metal binding site [ion binding]; metal-binding site 977880015957 putative dimer interface [polypeptide binding]; other site 977880015958 metabolite-proton symporter; Region: 2A0106; TIGR00883 977880015959 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 977880015960 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880015961 dimer interface [polypeptide binding]; other site 977880015962 putative CheW interface [polypeptide binding]; other site 977880015963 hypothetical protein; Provisional; Region: PRK07483 977880015964 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 977880015965 inhibitor-cofactor binding pocket; inhibition site 977880015966 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880015967 catalytic residue [active] 977880015968 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 977880015969 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 977880015970 active site 977880015971 putative substrate binding pocket [chemical binding]; other site 977880015972 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 977880015973 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880015974 amidase; Provisional; Region: PRK09201 977880015975 Amidase; Region: Amidase; cl11426 977880015976 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : transporter 977880015977 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : transporter 977880015978 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 977880015979 sequence-specific DNA binding site [nucleotide binding]; other site 977880015980 salt bridge; other site 977880015981 PAS domain S-box; Region: sensory_box; TIGR00229 977880015982 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 977880015983 heme pocket [chemical binding]; other site 977880015984 putative active site [active] 977880015985 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 977880015986 PAS fold; Region: PAS_3; pfam08447 977880015987 putative active site [active] 977880015988 heme pocket [chemical binding]; other site 977880015989 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 977880015990 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 977880015991 [2Fe-2S] cluster binding site [ion binding]; other site 977880015992 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 977880015993 putative alpha subunit interface [polypeptide binding]; other site 977880015994 putative active site [active] 977880015995 putative substrate binding site [chemical binding]; other site 977880015996 Fe binding site [ion binding]; other site 977880015997 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 977880015998 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 977880015999 tetramerization interface [polypeptide binding]; other site 977880016000 NAD(P) binding site [chemical binding]; other site 977880016001 catalytic residues [active] 977880016002 choline dehydrogenase; Validated; Region: PRK02106 977880016003 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 977880016004 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 977880016005 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 977880016006 Amino acid permease; Region: AA_permease_2; pfam13520 977880016007 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 977880016008 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 977880016009 FMN-binding pocket [chemical binding]; other site 977880016010 flavin binding motif; other site 977880016011 phosphate binding motif [ion binding]; other site 977880016012 beta-alpha-beta structure motif; other site 977880016013 NAD binding pocket [chemical binding]; other site 977880016014 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 977880016015 catalytic loop [active] 977880016016 iron binding site [ion binding]; other site 977880016017 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 977880016018 putative hydrophobic ligand binding site [chemical binding]; other site 977880016019 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 977880016020 dimerization interface [polypeptide binding]; other site 977880016021 putative DNA binding site [nucleotide binding]; other site 977880016022 putative Zn2+ binding site [ion binding]; other site 977880016023 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 977880016024 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880016025 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 977880016026 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 977880016027 Walker A/P-loop; other site 977880016028 ATP binding site [chemical binding]; other site 977880016029 Q-loop/lid; other site 977880016030 ABC transporter signature motif; other site 977880016031 Walker B; other site 977880016032 D-loop; other site 977880016033 H-loop/switch region; other site 977880016034 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 977880016035 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 977880016036 FtsX-like permease family; Region: FtsX; pfam02687 977880016037 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 977880016038 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 977880016039 FtsX-like permease family; Region: FtsX; pfam02687 977880016040 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 977880016041 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 977880016042 Electron transfer DM13; Region: DM13; pfam10517 977880016043 PemK-like protein; Region: PemK; pfam02452 977880016044 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 977880016045 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880016046 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 977880016047 trimer interface [polypeptide binding]; other site 977880016048 eyelet of channel; other site 977880016049 Transglycosylase; Region: Transgly; pfam00912 977880016050 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 977880016051 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 977880016052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 977880016053 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 977880016054 Cupin domain; Region: Cupin_2; cl17218 977880016055 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880016056 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880016057 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Saccharomyces cerevisiae biotin-apoprotein ligase (ScBLP); Region: GATase1_ScBLP_like; cd03144 977880016058 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 977880016059 conserved cys residue [active] 977880016060 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 977880016061 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 977880016062 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 977880016063 DXD motif; other site 977880016064 PilZ domain; Region: PilZ; pfam07238 977880016065 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 977880016066 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 977880016067 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880016068 Walker A/P-loop; other site 977880016069 ATP binding site [chemical binding]; other site 977880016070 Q-loop/lid; other site 977880016071 ABC transporter signature motif; other site 977880016072 Walker B; other site 977880016073 D-loop; other site 977880016074 H-loop/switch region; other site 977880016075 benzoate transport; Region: 2A0115; TIGR00895 977880016076 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880016077 putative substrate translocation pore; other site 977880016078 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880016079 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 977880016080 6-hydroxyhexanoate dehydrogenase (HHD) catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate; Region: HHD; cd08191 977880016081 putative active site [active] 977880016082 metal binding site [ion binding]; metal-binding site 977880016083 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880016084 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 977880016085 Transcriptional regulators [Transcription]; Region: GntR; COG1802 977880016086 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880016087 DNA-binding site [nucleotide binding]; DNA binding site 977880016088 FCD domain; Region: FCD; pfam07729 977880016089 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 977880016090 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 977880016091 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 977880016092 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 977880016093 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. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 977880016094 active site 977880016095 citrylCoA binding site [chemical binding]; other site 977880016096 oxalacetate binding site [chemical binding]; other site 977880016097 coenzyme A binding site [chemical binding]; other site 977880016098 catalytic triad [active] 977880016099 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880016100 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880016101 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880016102 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 977880016103 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880016104 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 977880016105 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 977880016106 metal binding site [ion binding]; metal-binding site 977880016107 putative dimer interface [polypeptide binding]; other site 977880016108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880016109 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880016110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880016111 LysR substrate binding domain; Region: LysR_substrate; pfam03466 977880016112 dimerization interface [polypeptide binding]; other site 977880016113 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 977880016114 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 977880016115 Flagellin N-methylase; Region: FliB; cl00497 977880016116 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 977880016117 Uncharacterized conserved protein [Function unknown]; Region: COG1262 977880016118 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 977880016119 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 977880016120 Sulfatase; Region: Sulfatase; cl17466 977880016121 Sulfatase; Region: Sulfatase; cl17466 977880016122 Uncharacterized conserved protein [Function unknown]; Region: COG5361 977880016123 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 977880016124 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 977880016125 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880016126 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880016127 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880016128 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880016129 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880016130 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 977880016131 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 977880016132 ATP-grasp domain; Region: ATP-grasp_4; cl17255 977880016133 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 977880016134 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 977880016135 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 977880016136 carboxyltransferase (CT) interaction site; other site 977880016137 biotinylation site [posttranslational modification]; other site 977880016138 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 977880016139 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 977880016140 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 977880016141 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 977880016142 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 977880016143 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 977880016144 PAS domain; Region: PAS_10; pfam13596 977880016145 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 977880016146 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 977880016147 Walker A motif; other site 977880016148 ATP binding site [chemical binding]; other site 977880016149 Walker B motif; other site 977880016150 arginine finger; other site 977880016151 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880016152 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 977880016153 putative DNA binding site [nucleotide binding]; other site 977880016154 putative Zn2+ binding site [ion binding]; other site 977880016155 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 977880016156 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880016157 putative metal binding site [ion binding]; other site 977880016158 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 977880016159 Low molecular weight phosphatase family; Region: LMWPc; cd00115 977880016160 active site 977880016161 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 977880016162 Sodium Bile acid symporter family; Region: SBF; cl17470 977880016163 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 977880016164 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880016165 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 977880016166 putative dimerization interface [polypeptide binding]; other site 977880016167 argininosuccinate lyase; Provisional; Region: PRK00855 977880016168 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 977880016169 active sites [active] 977880016170 tetramer interface [polypeptide binding]; other site 977880016171 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880016172 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 977880016173 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 977880016174 active site 977880016175 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 977880016176 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 977880016177 putative active site [active] 977880016178 hypothetical protein; Provisional; Region: PRK07338 977880016179 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 977880016180 metal binding site [ion binding]; metal-binding site 977880016181 dimer interface [polypeptide binding]; other site 977880016182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880016183 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 977880016184 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 977880016185 substrate binding pocket [chemical binding]; other site 977880016186 membrane-bound complex binding site; other site 977880016187 hinge residues; other site 977880016188 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 977880016189 dimer interface [polypeptide binding]; other site 977880016190 conserved gate region; other site 977880016191 putative PBP binding loops; other site 977880016192 ABC-ATPase subunit interface; other site 977880016193 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 977880016194 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 977880016195 dimer interface [polypeptide binding]; other site 977880016196 conserved gate region; other site 977880016197 putative PBP binding loops; other site 977880016198 ABC-ATPase subunit interface; other site 977880016199 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 977880016200 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 977880016201 Walker A/P-loop; other site 977880016202 ATP binding site [chemical binding]; other site 977880016203 Q-loop/lid; other site 977880016204 ABC transporter signature motif; other site 977880016205 Walker B; other site 977880016206 D-loop; other site 977880016207 H-loop/switch region; other site 977880016208 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 977880016209 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 977880016210 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 977880016211 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 977880016212 catalytic residue [active] 977880016213 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 977880016214 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 977880016215 active site residue [active] 977880016216 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 977880016217 active site residue [active] 977880016218 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 977880016219 active site residue [active] 977880016220 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 977880016221 active site residue [active] 977880016222 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880016223 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 977880016224 active site residue [active] 977880016225 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 977880016226 active site residue [active] 977880016227 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 977880016228 active site residue [active] 977880016229 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 977880016230 active site residue [active] 977880016231 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 977880016232 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 977880016233 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880016234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880016235 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 977880016236 putative dimerization interface [polypeptide binding]; other site 977880016237 Protein of unknown function (DUF808); Region: DUF808; pfam05661 977880016238 CHASE2 domain; Region: CHASE2; pfam05226 977880016239 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 977880016240 cyclase homology domain; Region: CHD; cd07302 977880016241 nucleotidyl binding site; other site 977880016242 metal binding site [ion binding]; metal-binding site 977880016243 dimer interface [polypeptide binding]; other site 977880016244 FecR protein; Region: FecR; pfam04773 977880016245 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 977880016246 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 977880016247 ligand binding site [chemical binding]; other site 977880016248 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 977880016249 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 977880016250 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880016251 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 977880016252 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 977880016253 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880016254 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 977880016255 Methyltransferase domain; Region: Methyltransf_23; pfam13489 977880016256 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 977880016257 S-adenosylmethionine binding site [chemical binding]; other site 977880016258 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 977880016259 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 977880016260 Walker A/P-loop; other site 977880016261 ATP binding site [chemical binding]; other site 977880016262 Q-loop/lid; other site 977880016263 ABC transporter signature motif; other site 977880016264 Walker B; other site 977880016265 D-loop; other site 977880016266 H-loop/switch region; other site 977880016267 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 977880016268 putative carbohydrate binding site [chemical binding]; other site 977880016269 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 977880016270 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 977880016271 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 977880016272 Substrate binding site; other site 977880016273 Cupin domain; Region: Cupin_2; cl17218 977880016274 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 977880016275 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 977880016276 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 977880016277 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880016278 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 977880016279 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 977880016280 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 977880016281 Walker A/P-loop; other site 977880016282 ATP binding site [chemical binding]; other site 977880016283 Q-loop/lid; other site 977880016284 ABC transporter signature motif; other site 977880016285 Walker B; other site 977880016286 D-loop; other site 977880016287 H-loop/switch region; other site 977880016288 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880016289 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_4; cd03795 977880016290 putative ADP-binding pocket [chemical binding]; other site 977880016291 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 977880016292 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880016293 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 977880016294 Ligand binding site; other site 977880016295 Putative Catalytic site; other site 977880016296 DXD motif; other site 977880016297 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 977880016298 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 977880016299 non-specific DNA binding site [nucleotide binding]; other site 977880016300 salt bridge; other site 977880016301 sequence-specific DNA binding site [nucleotide binding]; other site 977880016302 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 977880016303 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 977880016304 Strictosidine synthase; Region: Str_synth; pfam03088 977880016305 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880016306 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 977880016307 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 977880016308 ligand binding site [chemical binding]; other site 977880016309 NAD binding site [chemical binding]; other site 977880016310 dimerization interface [polypeptide binding]; other site 977880016311 catalytic site [active] 977880016312 hypothetical protein; Validated; Region: PRK06201 977880016313 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 977880016314 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880016315 Transcriptional regulator [Transcription]; Region: IclR; COG1414 977880016316 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 977880016317 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880016318 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 977880016319 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 977880016320 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 977880016321 active site 977880016322 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 977880016323 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 977880016324 putative NADP binding site [chemical binding]; other site 977880016325 putative substrate binding site [chemical binding]; other site 977880016326 active site 977880016327 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 977880016328 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 977880016329 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 977880016330 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 977880016331 FeS/SAM binding site; other site 977880016332 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 977880016333 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 977880016334 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 977880016335 ligand binding site; other site 977880016336 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 977880016337 B12 binding domain; Region: B12-binding; pfam02310 977880016338 B12 binding site [chemical binding]; other site 977880016339 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 977880016340 FeS/SAM binding site; other site 977880016341 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 977880016342 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 977880016343 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 977880016344 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 977880016345 VacJ like lipoprotein; Region: VacJ; cl01073 977880016346 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 977880016347 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 977880016348 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 977880016349 Copper resistance protein D; Region: CopD; pfam05425 977880016350 CopC domain; Region: CopC; pfam04234 977880016351 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 977880016352 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 977880016353 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 977880016354 Multicopper oxidase; Region: Cu-oxidase; pfam00394 977880016355 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 977880016356 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 977880016357 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 977880016358 active site 977880016359 phosphorylation site [posttranslational modification] 977880016360 intermolecular recognition site; other site 977880016361 dimerization interface [polypeptide binding]; other site 977880016362 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 977880016363 DNA binding site [nucleotide binding] 977880016364 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 977880016365 dimer interface [polypeptide binding]; other site 977880016366 phosphorylation site [posttranslational modification] 977880016367 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 977880016368 ATP binding site [chemical binding]; other site 977880016369 Mg2+ binding site [ion binding]; other site 977880016370 G-X-G motif; other site 977880016371 CHASE2 domain; Region: CHASE2; pfam05226 977880016372 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 977880016373 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 977880016374 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 977880016375 dimer interface [polypeptide binding]; other site 977880016376 phosphorylation site [posttranslational modification] 977880016377 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 977880016378 ATP binding site [chemical binding]; other site 977880016379 Mg2+ binding site [ion binding]; other site 977880016380 G-X-G motif; other site 977880016381 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 977880016382 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 977880016383 FecR protein; Region: FecR; pfam04773 977880016384 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 977880016385 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 977880016386 active site 977880016387 phosphorylation site [posttranslational modification] 977880016388 intermolecular recognition site; other site 977880016389 dimerization interface [polypeptide binding]; other site 977880016390 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 977880016391 DNA binding site [nucleotide binding] 977880016392 Predicted membrane protein [Function unknown]; Region: COG4267 977880016393 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_3; cd03813 977880016394 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 977880016395 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 977880016396 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 977880016397 GAF domain; Region: GAF_3; pfam13492 977880016398 Predicted integral membrane protein [Function unknown]; Region: COG5616 977880016399 Tetratricopeptide repeat; Region: TPR_15; pfam13429 977880016400 Uncharacterized conserved protein [Function unknown]; Region: COG3868 977880016401 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 977880016402 putative active site [active] 977880016403 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 977880016404 DNA-binding site [nucleotide binding]; DNA binding site 977880016405 RNA-binding motif; other site 977880016406 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 977880016407 substrate binding pocket [chemical binding]; other site 977880016408 substrate-Mg2+ binding site; other site 977880016409 aspartate-rich region 1; other site 977880016410 aspartate-rich region 2; other site 977880016411 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 977880016412 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 977880016413 Active site cavity [active] 977880016414 catalytic acid [active] 977880016415 hypothetical protein; Provisional; Region: PRK07077 977880016416 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 977880016417 putative chaperone; Provisional; Region: PRK11678 977880016418 nucleotide binding site [chemical binding]; other site 977880016419 putative NEF/HSP70 interaction site [polypeptide binding]; other site 977880016420 SBD interface [polypeptide binding]; other site 977880016421 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 977880016422 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880016423 metal binding site [ion binding]; metal-binding site 977880016424 active site 977880016425 I-site; other site 977880016426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880016427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880016428 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 977880016429 S-adenosylmethionine binding site [chemical binding]; other site 977880016430 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 977880016431 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 977880016432 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 977880016433 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 977880016434 Walker A/P-loop; other site 977880016435 ATP binding site [chemical binding]; other site 977880016436 Q-loop/lid; other site 977880016437 ABC transporter signature motif; other site 977880016438 Walker B; other site 977880016439 D-loop; other site 977880016440 H-loop/switch region; other site 977880016441 NMT1-like family; Region: NMT1_2; pfam13379 977880016442 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 977880016443 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 977880016444 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 977880016445 active site 977880016446 iron coordination sites [ion binding]; other site 977880016447 Cytochrome c; Region: Cytochrom_C; pfam00034 977880016448 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 977880016449 Moco binding site; other site 977880016450 metal coordination site [ion binding]; other site 977880016451 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 977880016452 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 977880016453 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 977880016454 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 977880016455 ABC-ATPase subunit interface; other site 977880016456 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 977880016457 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 977880016458 dimer interface [polypeptide binding]; other site 977880016459 conserved gate region; other site 977880016460 putative PBP binding loops; other site 977880016461 ABC-ATPase subunit interface; other site 977880016462 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 977880016463 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 977880016464 Walker A/P-loop; other site 977880016465 ATP binding site [chemical binding]; other site 977880016466 Q-loop/lid; other site 977880016467 ABC transporter signature motif; other site 977880016468 Walker B; other site 977880016469 D-loop; other site 977880016470 H-loop/switch region; other site 977880016471 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 977880016472 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 977880016473 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 977880016474 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 977880016475 active site 977880016476 non-prolyl cis peptide bond; other site 977880016477 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 977880016478 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 977880016479 homodimer interface [polypeptide binding]; other site 977880016480 substrate-cofactor binding pocket; other site 977880016481 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880016482 catalytic residue [active] 977880016483 Predicted integral membrane protein [Function unknown]; Region: COG0392 977880016484 cardiolipin synthase 2; Provisional; Region: PRK11263 977880016485 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 977880016486 putative active site [active] 977880016487 catalytic site [active] 977880016488 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 977880016489 putative active site [active] 977880016490 catalytic site [active] 977880016491 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 977880016492 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 977880016493 short chain dehydrogenase; Provisional; Region: PRK12744 977880016494 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 977880016495 NADP binding site [chemical binding]; other site 977880016496 homodimer interface [polypeptide binding]; other site 977880016497 active site 977880016498 substrate binding site [chemical binding]; other site 977880016499 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880016500 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880016501 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 977880016502 putative effector binding pocket; other site 977880016503 putative dimerization interface [polypeptide binding]; other site 977880016504 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 977880016505 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 977880016506 tetramer interface [polypeptide binding]; other site 977880016507 TPP-binding site [chemical binding]; other site 977880016508 heterodimer interface [polypeptide binding]; other site 977880016509 phosphorylation loop region [posttranslational modification] 977880016510 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 977880016511 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 977880016512 alpha subunit interface [polypeptide binding]; other site 977880016513 TPP binding site [chemical binding]; other site 977880016514 heterodimer interface [polypeptide binding]; other site 977880016515 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 977880016516 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 977880016517 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 977880016518 E3 interaction surface; other site 977880016519 lipoyl attachment site [posttranslational modification]; other site 977880016520 e3 binding domain; Region: E3_binding; pfam02817 977880016521 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 977880016522 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 977880016523 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 977880016524 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 977880016525 Sulfate transporter family; Region: Sulfate_transp; pfam00916 977880016526 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 977880016527 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 977880016528 Ligand Binding Site [chemical binding]; other site 977880016529 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 977880016530 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 977880016531 dimer interface [polypeptide binding]; other site 977880016532 decamer (pentamer of dimers) interface [polypeptide binding]; other site 977880016533 catalytic triad [active] 977880016534 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 977880016535 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 977880016536 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 977880016537 active site 977880016538 phosphorylation site [posttranslational modification] 977880016539 intermolecular recognition site; other site 977880016540 dimerization interface [polypeptide binding]; other site 977880016541 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 977880016542 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880016543 DNA-binding site [nucleotide binding]; DNA binding site 977880016544 UTRA domain; Region: UTRA; pfam07702 977880016545 putative oxidoreductase; Provisional; Region: PRK08275 977880016546 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 977880016547 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 977880016548 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 977880016549 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 977880016550 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 977880016551 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 977880016552 substrate binding pocket [chemical binding]; other site 977880016553 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 977880016554 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 977880016555 putative PBP binding loops; other site 977880016556 dimer interface [polypeptide binding]; other site 977880016557 ABC-ATPase subunit interface; other site 977880016558 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 977880016559 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 977880016560 Walker A/P-loop; other site 977880016561 ATP binding site [chemical binding]; other site 977880016562 Q-loop/lid; other site 977880016563 ABC transporter signature motif; other site 977880016564 Walker B; other site 977880016565 D-loop; other site 977880016566 H-loop/switch region; other site 977880016567 HEAT repeats; Region: HEAT_2; pfam13646 977880016568 HEAT repeats; Region: HEAT_2; pfam13646 977880016569 HEAT repeats; Region: HEAT_2; pfam13646 977880016570 HEAT repeats; Region: HEAT_2; pfam13646 977880016571 Ubiquitin-like proteins; Region: UBQ; cl00155 977880016572 charged pocket; other site 977880016573 hydrophobic patch; other site 977880016574 BNR repeat-like domain; Region: BNR_2; pfam13088 977880016575 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 977880016576 Sulfate transporter family; Region: Sulfate_transp; pfam00916 977880016577 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 977880016578 H-NS histone family; Region: Histone_HNS; pfam00816 977880016579 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 977880016580 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 977880016581 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880016582 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880016583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880016584 transcriptional activator TtdR; Provisional; Region: PRK09801 977880016585 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 977880016586 putative effector binding pocket; other site 977880016587 dimerization interface [polypeptide binding]; other site 977880016588 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880016589 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880016590 putative substrate translocation pore; other site 977880016591 NnrS protein; Region: NnrS; pfam05940 977880016592 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 977880016593 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880016594 putative substrate translocation pore; other site 977880016595 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 977880016596 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 977880016597 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 977880016598 [4Fe-4S] binding site [ion binding]; other site 977880016599 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 977880016600 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 977880016601 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 977880016602 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 977880016603 molybdopterin cofactor binding site; other site 977880016604 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 977880016605 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 977880016606 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 977880016607 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 977880016608 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 977880016609 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 977880016610 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 977880016611 active site clefts [active] 977880016612 zinc binding site [ion binding]; other site 977880016613 dimer interface [polypeptide binding]; other site 977880016614 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 977880016615 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 977880016616 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 977880016617 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 977880016618 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 977880016619 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 977880016620 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 977880016621 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 977880016622 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 977880016623 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 977880016624 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 977880016625 FeS/SAM binding site; other site 977880016626 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 977880016627 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 977880016628 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 977880016629 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 977880016630 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 977880016631 active site 977880016632 SAM binding site [chemical binding]; other site 977880016633 homodimer interface [polypeptide binding]; other site 977880016634 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 977880016635 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 977880016636 dimerization interface [polypeptide binding]; other site 977880016637 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 977880016638 dimer interface [polypeptide binding]; other site 977880016639 phosphorylation site [posttranslational modification] 977880016640 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 977880016641 ATP binding site [chemical binding]; other site 977880016642 Mg2+ binding site [ion binding]; other site 977880016643 G-X-G motif; other site 977880016644 osmolarity response regulator; Provisional; Region: ompR; PRK09468 977880016645 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 977880016646 active site 977880016647 phosphorylation site [posttranslational modification] 977880016648 intermolecular recognition site; other site 977880016649 dimerization interface [polypeptide binding]; other site 977880016650 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 977880016651 DNA binding site [nucleotide binding] 977880016652 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 977880016653 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 977880016654 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 977880016655 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880016656 dimer interface [polypeptide binding]; other site 977880016657 putative CheW interface [polypeptide binding]; other site 977880016658 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 977880016659 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 977880016660 putative active site [active] 977880016661 catalytic site [active] 977880016662 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 977880016663 putative active site [active] 977880016664 catalytic site [active] 977880016665 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880016666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880016667 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 977880016668 putative effector binding pocket; other site 977880016669 dimerization interface [polypeptide binding]; other site 977880016670 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 977880016671 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880016672 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880016673 Histidine kinase; Region: HisKA_3; pfam07730 977880016674 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 977880016675 ATP binding site [chemical binding]; other site 977880016676 Mg2+ binding site [ion binding]; other site 977880016677 G-X-G motif; other site 977880016678 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880016679 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 977880016680 active site 977880016681 phosphorylation site [posttranslational modification] 977880016682 intermolecular recognition site; other site 977880016683 dimerization interface [polypeptide binding]; other site 977880016684 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 977880016685 DNA binding residues [nucleotide binding] 977880016686 dimerization interface [polypeptide binding]; other site 977880016687 Alkaline and neutral invertase; Region: Glyco_hydro_100; cl17340 977880016688 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 977880016689 BON domain; Region: BON; pfam04972 977880016690 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 977880016691 putative catalytic site [active] 977880016692 putative phosphate binding site [ion binding]; other site 977880016693 active site 977880016694 metal binding site A [ion binding]; metal-binding site 977880016695 DNA binding site [nucleotide binding] 977880016696 putative AP binding site [nucleotide binding]; other site 977880016697 putative metal binding site B [ion binding]; other site 977880016698 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880016699 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880016700 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_5; cd08426 977880016701 putative dimerization interface [polypeptide binding]; other site 977880016702 amidase; Provisional; Region: PRK07486 977880016703 Amidase; Region: Amidase; cl11426 977880016704 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880016705 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 977880016706 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 977880016707 homotrimer interaction site [polypeptide binding]; other site 977880016708 putative active site [active] 977880016709 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 977880016710 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 977880016711 DNA binding residues [nucleotide binding] 977880016712 Cytochrome c2 [Energy production and conversion]; Region: COG3474 977880016713 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 977880016714 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 977880016715 catalytic residues [active] 977880016716 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 977880016717 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 977880016718 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 977880016719 Hemerythrin-like domain; Region: Hr-like; cd12108 977880016720 Fe binding site [ion binding]; other site 977880016721 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 977880016722 GAF domain; Region: GAF; pfam01590 977880016723 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 977880016724 Walker A motif; other site 977880016725 ATP binding site [chemical binding]; other site 977880016726 Walker B motif; other site 977880016727 arginine finger; other site 977880016728 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880016729 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 977880016730 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 977880016731 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 977880016732 metal binding site [ion binding]; metal-binding site 977880016733 active site 977880016734 I-site; other site 977880016735 SCP-2 sterol transfer family; Region: SCP2; cl01225 977880016736 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 977880016737 putative protease; Provisional; Region: PRK15447 977880016738 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 977880016739 Peptidase family U32; Region: Peptidase_U32; pfam01136 977880016740 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 977880016741 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 977880016742 FMN binding site [chemical binding]; other site 977880016743 substrate binding site [chemical binding]; other site 977880016744 putative catalytic residue [active] 977880016745 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 977880016746 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 977880016747 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 977880016748 dimerization interface [polypeptide binding]; other site 977880016749 GAF domain; Region: GAF_3; pfam13492 977880016750 Histidine kinase; Region: HisKA_3; pfam07730 977880016751 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 977880016752 ATP binding site [chemical binding]; other site 977880016753 Mg2+ binding site [ion binding]; other site 977880016754 G-X-G motif; other site 977880016755 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 977880016756 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 977880016757 active site 977880016758 phosphorylation site [posttranslational modification] 977880016759 intermolecular recognition site; other site 977880016760 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 977880016761 DNA binding residues [nucleotide binding] 977880016762 dimerization interface [polypeptide binding]; other site 977880016763 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 977880016764 Putative ParB-like nuclease; Region: ParBc_2; cl17538 977880016765 short chain dehydrogenase; Provisional; Region: PRK06701 977880016766 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 977880016767 NAD binding site [chemical binding]; other site 977880016768 metal binding site [ion binding]; metal-binding site 977880016769 active site 977880016770 BON domain; Region: BON; pfam04972 977880016771 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 977880016772 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 977880016773 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 977880016774 active site 977880016775 DNA binding site [nucleotide binding] 977880016776 Int/Topo IB signature motif; other site 977880016777 catalytic residues [active] 977880016778 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 977880016779 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 977880016780 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 977880016781 Low affinity iron permease; Region: Iron_permease; pfam04120 977880016782 PRC-barrel domain; Region: PRC; pfam05239 977880016783 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880016784 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 977880016785 phosphorylation site [posttranslational modification] 977880016786 dimer interface [polypeptide binding]; other site 977880016787 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 977880016788 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 977880016789 active site 977880016790 phosphorylation site [posttranslational modification] 977880016791 intermolecular recognition site; other site 977880016792 dimerization interface [polypeptide binding]; other site 977880016793 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 977880016794 Walker A motif; other site 977880016795 ATP binding site [chemical binding]; other site 977880016796 Walker B motif; other site 977880016797 arginine finger; other site 977880016798 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880016799 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 977880016800 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 977880016801 Walker A motif; other site 977880016802 ATP binding site [chemical binding]; other site 977880016803 Walker B motif; other site 977880016804 arginine finger; other site 977880016805 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 977880016806 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 977880016807 PAS domain; Region: PAS_9; pfam13426 977880016808 putative active site [active] 977880016809 heme pocket [chemical binding]; other site 977880016810 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 977880016811 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 977880016812 putative active site [active] 977880016813 heme pocket [chemical binding]; other site 977880016814 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 977880016815 dimer interface [polypeptide binding]; other site 977880016816 phosphorylation site [posttranslational modification] 977880016817 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 977880016818 ATP binding site [chemical binding]; other site 977880016819 Mg2+ binding site [ion binding]; other site 977880016820 G-X-G motif; other site 977880016821 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 977880016822 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 977880016823 active site 977880016824 phosphorylation site [posttranslational modification] 977880016825 intermolecular recognition site; other site 977880016826 dimerization interface [polypeptide binding]; other site 977880016827 short chain dehydrogenase; Provisional; Region: PRK07109 977880016828 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 977880016829 putative NAD(P) binding site [chemical binding]; other site 977880016830 active site 977880016831 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 977880016832 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 977880016833 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 977880016834 active site 977880016835 DNA binding site [nucleotide binding] 977880016836 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 977880016837 DNA binding site [nucleotide binding] 977880016838 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 977880016839 nucleotide binding site [chemical binding]; other site 977880016840 Response regulator receiver domain; Region: Response_reg; pfam00072 977880016841 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 977880016842 active site 977880016843 phosphorylation site [posttranslational modification] 977880016844 intermolecular recognition site; other site 977880016845 dimerization interface [polypeptide binding]; other site 977880016846 PAS domain; Region: PAS; smart00091 977880016847 PAS domain; Region: PAS_9; pfam13426 977880016848 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 977880016849 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 977880016850 dimer interface [polypeptide binding]; other site 977880016851 phosphorylation site [posttranslational modification] 977880016852 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 977880016853 ATP binding site [chemical binding]; other site 977880016854 Mg2+ binding site [ion binding]; other site 977880016855 G-X-G motif; other site 977880016856 Response regulator receiver domain; Region: Response_reg; pfam00072 977880016857 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 977880016858 active site 977880016859 phosphorylation site [posttranslational modification] 977880016860 intermolecular recognition site; other site 977880016861 dimerization interface [polypeptide binding]; other site 977880016862 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 977880016863 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 977880016864 putative DNA binding site [nucleotide binding]; other site 977880016865 putative homodimer interface [polypeptide binding]; other site 977880016866 BON domain; Region: BON; pfam04972 977880016867 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 977880016868 Sm and related proteins; Region: Sm_like; cl00259 977880016869 heptamer interface [polypeptide binding]; other site 977880016870 Sm1 motif; other site 977880016871 hexamer interface [polypeptide binding]; other site 977880016872 RNA binding site [nucleotide binding]; other site 977880016873 Sm2 motif; other site 977880016874 flagellin; Validated; Region: PRK06819 977880016875 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 977880016876 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 977880016877 FlaG protein; Region: FlaG; pfam03646 977880016878 flagellar capping protein; Reviewed; Region: fliD; PRK08032 977880016879 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 977880016880 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 977880016881 flagellar protein FliS; Validated; Region: fliS; PRK05685 977880016882 Flagellar protein FliT; Region: FliT; pfam05400 977880016883 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 977880016884 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 977880016885 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 977880016886 binding surface 977880016887 TPR motif; other site 977880016888 Tetratricopeptide repeat; Region: TPR_16; pfam13432 977880016889 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 977880016890 TPR motif; other site 977880016891 binding surface 977880016892 TPR repeat; Region: TPR_11; pfam13414 977880016893 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 977880016894 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 977880016895 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 977880016896 substrate binding site; other site 977880016897 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 977880016898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880016899 NAD(P) binding site [chemical binding]; other site 977880016900 active site 977880016901 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 977880016902 Methyltransferase domain; Region: Methyltransf_23; pfam13489 977880016903 Methyltransferase domain; Region: Methyltransf_12; pfam08242 977880016904 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 977880016905 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 977880016906 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 977880016907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880016908 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 977880016909 NAD(P) binding site [chemical binding]; other site 977880016910 active site 977880016911 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 977880016912 putative trimer interface [polypeptide binding]; other site 977880016913 putative CoA binding site [chemical binding]; other site 977880016914 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 977880016915 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 977880016916 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 977880016917 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 977880016918 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 977880016919 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 977880016920 FliG C-terminal domain; Region: FliG_C; pfam01706 977880016921 flagellar assembly protein H; Validated; Region: fliH; PRK05687 977880016922 Flagellar assembly protein FliH; Region: FliH; pfam02108 977880016923 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 977880016924 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 977880016925 Walker A motif/ATP binding site; other site 977880016926 Walker B motif; other site 977880016927 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 977880016928 Flagellar FliJ protein; Region: FliJ; pfam02050 977880016929 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 977880016930 YcfA-like protein; Region: YcfA; cl00752 977880016931 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 977880016932 non-specific DNA binding site [nucleotide binding]; other site 977880016933 salt bridge; other site 977880016934 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 977880016935 sequence-specific DNA binding site [nucleotide binding]; other site 977880016936 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 977880016937 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 977880016938 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 977880016939 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 977880016940 dimer interface [polypeptide binding]; other site 977880016941 pyridoxal 5'-phosphate binding site [chemical binding]; other site 977880016942 catalytic residue [active] 977880016943 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 977880016944 Protein of unknown function (DUF938); Region: DUF938; pfam06080 977880016945 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 977880016946 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 977880016947 nucleophilic elbow; other site 977880016948 catalytic triad; other site 977880016949 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 977880016950 Uncharacterized conserved protein [Function unknown]; Region: COG1739 977880016951 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 977880016952 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 977880016953 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 977880016954 catalytic loop [active] 977880016955 iron binding site [ion binding]; other site 977880016956 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 977880016957 putative active site [active] 977880016958 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 977880016959 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 977880016960 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 977880016961 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 977880016962 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 977880016963 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 977880016964 active site 977880016965 catalytic site [active] 977880016966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 977880016967 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 977880016968 active site 977880016969 zinc binding site [ion binding]; other site 977880016970 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 977880016971 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 977880016972 META domain; Region: META; cl01245 977880016973 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 977880016974 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 977880016975 HlyD family secretion protein; Region: HlyD_3; pfam13437 977880016976 Outer membrane efflux protein; Region: OEP; pfam02321 977880016977 Putative zinc-finger; Region: zf-HC2; pfam13490 977880016978 RNA polymerase sigma factor; Provisional; Region: PRK12520 977880016979 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 977880016980 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 977880016981 DNA binding residues [nucleotide binding] 977880016982 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 977880016983 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 977880016984 putative active site [active] 977880016985 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 977880016986 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 977880016987 Walker A motif; other site 977880016988 ATP binding site [chemical binding]; other site 977880016989 Walker B motif; other site 977880016990 arginine finger; other site 977880016991 putative hydrolase; Provisional; Region: PRK11460 977880016992 Predicted esterase [General function prediction only]; Region: COG0400 977880016993 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 977880016994 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 977880016995 putative dimer interface [polypeptide binding]; other site 977880016996 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 977880016997 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 977880016998 putative dimer interface [polypeptide binding]; other site 977880016999 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880017000 Catalytic domain of Protein Kinases; Region: PKc; cd00180 977880017001 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 977880017002 substrate binding site [chemical binding]; other site 977880017003 activation loop (A-loop); other site 977880017004 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 977880017005 AAA ATPase domain; Region: AAA_16; pfam13191 977880017006 Predicted ATPase [General function prediction only]; Region: COG3899 977880017007 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 977880017008 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 977880017009 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 977880017010 ATP binding site [chemical binding]; other site 977880017011 G-X-G motif; other site 977880017012 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 977880017013 dimerization interface [polypeptide binding]; other site 977880017014 putative DNA binding site [nucleotide binding]; other site 977880017015 putative Zn2+ binding site [ion binding]; other site 977880017016 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 977880017017 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 977880017018 NAD binding site [chemical binding]; other site 977880017019 catalytic Zn binding site [ion binding]; other site 977880017020 substrate binding site [chemical binding]; other site 977880017021 structural Zn binding site [ion binding]; other site 977880017022 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 977880017023 PLD-like domain; Region: PLDc_2; pfam13091 977880017024 putative active site [active] 977880017025 catalytic site [active] 977880017026 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 977880017027 PLD-like domain; Region: PLDc_2; pfam13091 977880017028 putative active site [active] 977880017029 catalytic site [active] 977880017030 lysine transporter; Provisional; Region: PRK10836 977880017031 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 977880017032 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 977880017033 active site 977880017034 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 977880017035 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 977880017036 Helix-turn-helix domain; Region: HTH_18; pfam12833 977880017037 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 977880017038 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 977880017039 catechol 1,2-dioxygenase, Actinobacterial; Region: catachol_actin; TIGR02438 977880017040 active site 977880017041 Cupin domain; Region: Cupin_2; cl17218 977880017042 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 977880017043 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 977880017044 N-terminal plug; other site 977880017045 ligand-binding site [chemical binding]; other site 977880017046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 977880017047 Transposase; Region: DEDD_Tnp_IS110; pfam01548 977880017048 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 977880017049 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 977880017050 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 977880017051 Na binding site [ion binding]; other site 977880017052 putative substrate binding site [chemical binding]; other site 977880017053 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 977880017054 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 977880017055 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 977880017056 active site 977880017057 catalytic site [active] 977880017058 tetramer interface [polypeptide binding]; other site 977880017059 Transcriptional regulators [Transcription]; Region: GntR; COG1802 977880017060 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 977880017061 DNA-binding site [nucleotide binding]; DNA binding site 977880017062 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 977880017063 Domain of unknown function (DUF427); Region: DUF427; pfam04248 977880017064 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880017065 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880017066 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880017067 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 977880017068 active site 977880017069 catalytic residues [active] 977880017070 metal binding site [ion binding]; metal-binding site 977880017071 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880017072 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880017073 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 977880017074 putative dimerization interface [polypeptide binding]; other site 977880017075 short chain dehydrogenase; Provisional; Region: PRK12828 977880017076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880017077 NAD(P) binding site [chemical binding]; other site 977880017078 active site 977880017079 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880017080 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880017081 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 977880017082 substrate binding pocket [chemical binding]; other site 977880017083 dimerization interface [polypeptide binding]; other site 977880017084 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 977880017085 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 977880017086 potential catalytic triad [active] 977880017087 conserved cys residue [active] 977880017088 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 977880017089 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 977880017090 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 977880017091 active site 977880017092 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 977880017093 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 977880017094 Flavodoxin; Region: Flavodoxin_1; pfam00258 977880017095 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 977880017096 conserved FAD binding motif [chemical binding]; other site 977880017097 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_like1; cd06200 977880017098 FAD binding pocket [chemical binding]; other site 977880017099 FAD binding motif [chemical binding]; other site 977880017100 catalytic residues [active] 977880017101 NAD binding pocket [chemical binding]; other site 977880017102 phosphate binding motif [ion binding]; other site 977880017103 beta-alpha-beta structure motif; other site 977880017104 ApbE family; Region: ApbE; pfam02424 977880017105 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 977880017106 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 977880017107 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 977880017108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 977880017109 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 977880017110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880017111 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 977880017112 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 977880017113 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 977880017114 dihydroxy-acid dehydratase; Validated; Region: PRK06131 977880017115 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 977880017116 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 977880017117 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 977880017118 dimer interface [polypeptide binding]; other site 977880017119 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880017120 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880017121 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 977880017122 putative dimerization interface [polypeptide binding]; other site 977880017123 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 977880017124 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 977880017125 Chromate transporter; Region: Chromate_transp; pfam02417 977880017126 Cache domain; Region: Cache_2; pfam08269 977880017127 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 977880017128 dimer interface [polypeptide binding]; other site 977880017129 putative CheW interface [polypeptide binding]; other site 977880017130 Predicted membrane protein [Function unknown]; Region: COG2261 977880017131 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 977880017132 Transglycosylase; Region: Transgly; cl17702 977880017133 HEC/Ndc80p family; Region: Ndc80_HEC; pfam03801 977880017134 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 977880017135 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 977880017136 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 977880017137 active site 977880017138 catalytic tetrad [active] 977880017139 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 977880017140 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 977880017141 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 977880017142 Subunit I/III interface [polypeptide binding]; other site 977880017143 Subunit III/IV interface [polypeptide binding]; other site 977880017144 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 977880017145 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 977880017146 D-pathway; other site 977880017147 Putative ubiquinol binding site [chemical binding]; other site 977880017148 Low-spin heme (heme b) binding site [chemical binding]; other site 977880017149 Putative water exit pathway; other site 977880017150 Binuclear center (heme o3/CuB) [ion binding]; other site 977880017151 K-pathway; other site 977880017152 Putative proton exit pathway; other site 977880017153 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 977880017154 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 977880017155 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 977880017156 metabolite-proton symporter; Region: 2A0106; TIGR00883 977880017157 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 977880017158 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 977880017159 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 977880017160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 977880017161 NAD(P) binding site [chemical binding]; other site 977880017162 active site 977880017163 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 977880017164 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 977880017165 C-terminal domain interface [polypeptide binding]; other site 977880017166 GSH binding site (G-site) [chemical binding]; other site 977880017167 dimer interface [polypeptide binding]; other site 977880017168 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 977880017169 N-terminal domain interface [polypeptide binding]; other site 977880017170 dimer interface [polypeptide binding]; other site 977880017171 substrate binding pocket (H-site) [chemical binding]; other site 977880017172 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 977880017173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 977880017174 MOSC domain; Region: MOSC; pfam03473 977880017175 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 977880017176 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 977880017177 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880017178 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 977880017179 dimerization interface [polypeptide binding]; other site 977880017180 substrate binding pocket [chemical binding]; other site 977880017181 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 977880017182 homotrimer interaction site [polypeptide binding]; other site 977880017183 putative active site [active] 977880017184 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 977880017185 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_family; cd02803 977880017186 active site 977880017187 FMN binding site [chemical binding]; other site 977880017188 substrate binding site [chemical binding]; other site 977880017189 putative catalytic residue [active] 977880017190 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 977880017191 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880017192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880017193 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 977880017194 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 977880017195 NADP binding site [chemical binding]; other site 977880017196 dimer interface [polypeptide binding]; other site 977880017197 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 977880017198 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 977880017199 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 977880017200 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 977880017201 acyl-activating enzyme (AAE) consensus motif; other site 977880017202 AMP binding site [chemical binding]; other site 977880017203 active site 977880017204 CoA binding site [chemical binding]; other site 977880017205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 977880017206 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 977880017207 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 977880017208 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 977880017209 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 977880017210 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 977880017211 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 977880017212 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 977880017213 trimer interface [polypeptide binding]; other site 977880017214 eyelet of channel; other site 977880017215 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 977880017216 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 977880017217 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880017218 putative substrate translocation pore; other site 977880017219 argininosuccinate synthase; Validated; Region: PRK05370 977880017220 argininosuccinate synthase; Provisional; Region: PRK13820 977880017221 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 977880017222 CoA-transferase family III; Region: CoA_transf_3; pfam02515 977880017223 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 977880017224 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 977880017225 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 977880017226 substrate binding site [chemical binding]; other site 977880017227 oxyanion hole (OAH) forming residues; other site 977880017228 trimer interface [polypeptide binding]; other site 977880017229 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880017230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880017231 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 977880017232 putative dimerization interface [polypeptide binding]; other site 977880017233 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 977880017234 dimer interface [polypeptide binding]; other site 977880017235 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 977880017236 hypothetical protein; Provisional; Region: PRK04325 977880017237 Major Facilitator Superfamily; Region: MFS_1; pfam07690 977880017238 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 977880017239 putative substrate translocation pore; other site 977880017240 NAD-dependent deacetylase; Provisional; Region: PRK05333 977880017241 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 977880017242 NAD+ binding site [chemical binding]; other site 977880017243 substrate binding site [chemical binding]; other site 977880017244 Zn binding site [ion binding]; other site 977880017245 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 977880017246 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 977880017247 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 977880017248 active site 977880017249 nucleophile elbow; other site 977880017250 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 977880017251 Surface antigen; Region: Bac_surface_Ag; pfam01103 977880017252 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 977880017253 Predicted transporter component [General function prediction only]; Region: COG2391 977880017254 Predicted transporter component [General function prediction only]; Region: COG2391 977880017255 Sulphur transport; Region: Sulf_transp; pfam04143 977880017256 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 977880017257 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 977880017258 Bacterial transcriptional regulator; Region: IclR; pfam01614 977880017259 Flagellar regulator YcgR; Region: YcgR; pfam07317 977880017260 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 977880017261 PilZ domain; Region: PilZ; pfam07238 977880017262 Transcriptional regulator [Transcription]; Region: LysR; COG0583 977880017263 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 977880017264 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 977880017265 dimerization interface [polypeptide binding]; other site 977880017266 LysE type translocator; Region: LysE; cl00565 977880017267 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 977880017268 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 977880017269 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 977880017270 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 977880017271 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 977880017272 DNA binding site [nucleotide binding] 977880017273 active site 977880017274 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 977880017275 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 977880017276 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880017277 AlkA N-terminal domain; Region: AlkA_N; pfam06029 977880017278 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 977880017279 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 977880017280 helix-hairpin-helix signature motif; other site 977880017281 substrate binding pocket [chemical binding]; other site 977880017282 active site 977880017283 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 977880017284 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 977880017285 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 977880017286 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 977880017287 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 977880017288 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 977880017289 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 977880017290 active site 977880017291 OPT oligopeptide transporter protein; Region: OPT; cl14607 977880017292 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 977880017293 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 977880017294 MarR family; Region: MarR_2; pfam12802 977880017295 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 977880017296 hypothetical protein; Provisional; Region: PRK11770 977880017297 Domain of unknown function (DUF307); Region: DUF307; pfam03733 977880017298 Domain of unknown function (DUF307); Region: DUF307; pfam03733 977880017299 HAMP domain; Region: HAMP; pfam00672 977880017300 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 977880017301 ATP binding site [chemical binding]; other site 977880017302 Mg2+ binding site [ion binding]; other site 977880017303 G-X-G motif; other site 977880017304 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 977880017305 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 977880017306 active site 977880017307 phosphorylation site [posttranslational modification] 977880017308 intermolecular recognition site; other site 977880017309 dimerization interface [polypeptide binding]; other site 977880017310 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 977880017311 DNA binding site [nucleotide binding] 977880017312 glucokinase; Provisional; Region: glk; PRK00292 977880017313 glucokinase, proteobacterial type; Region: glk; TIGR00749 977880017314 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 977880017315 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 977880017316 putative active site [active] 977880017317 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 977880017318 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 977880017319 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 977880017320 phosphogluconate dehydratase; Validated; Region: PRK09054 977880017321 6-phosphogluconate dehydratase; Region: edd; TIGR01196 977880017322 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 977880017323 Mechanosensitive ion channel; Region: MS_channel; pfam00924 977880017324 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 977880017325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 977880017326 H+ Antiporter protein; Region: 2A0121; TIGR00900 977880017327 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 977880017328 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 977880017329 N-terminal plug; other site 977880017330 ligand-binding site [chemical binding]; other site 977880017331 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 977880017332 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 977880017333 G1 box; other site 977880017334 putative GEF interaction site [polypeptide binding]; other site 977880017335 GTP/Mg2+ binding site [chemical binding]; other site 977880017336 Switch I region; other site 977880017337 G2 box; other site 977880017338 G3 box; other site 977880017339 Switch II region; other site 977880017340 G4 box; other site 977880017341 G5 box; other site 977880017342 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 977880017343 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 977880017344 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 977880017345 Xyloglucan endo-transglycosylase (XET) C-terminus; Region: XET_C; pfam06955 977880017346 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 977880017347 Walker A motif; other site 977880017348 ATP binding site [chemical binding]; other site 977880017349 Walker B motif; other site 977880017350 arginine finger; other site 977880017351 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 977880017352 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 977880017353 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 977880017354 DNA-binding site [nucleotide binding]; DNA binding site 977880017355 RNA-binding motif; other site