-- dump date 20140619_061459 -- class Genbank::misc_feature -- table misc_feature_note -- id note 177437000001 DNA polymerase III subunit beta; Validated; Region: PRK05643 177437000002 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 177437000003 putative DNA binding surface [nucleotide binding]; other site 177437000004 dimer interface [polypeptide binding]; other site 177437000005 beta-clamp/clamp loader binding surface; other site 177437000006 beta-clamp/translesion DNA polymerase binding surface; other site 177437000007 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 177437000008 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 177437000009 ATP binding site [chemical binding]; other site 177437000010 Mg2+ binding site [ion binding]; other site 177437000011 G-X-G motif; other site 177437000012 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 177437000013 anchoring element; other site 177437000014 dimer interface [polypeptide binding]; other site 177437000015 ATP binding site [chemical binding]; other site 177437000016 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 177437000017 active site 177437000018 putative metal-binding site [ion binding]; other site 177437000019 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 177437000020 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 177437000021 binding surface 177437000022 TPR motif; other site 177437000023 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 177437000024 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 177437000025 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 177437000026 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 177437000027 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 177437000028 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 177437000029 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 177437000030 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 177437000031 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14460 177437000032 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 177437000033 FeS/SAM binding site; other site 177437000034 aminotransferase; Validated; Region: PRK08175 177437000035 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 177437000036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437000037 homodimer interface [polypeptide binding]; other site 177437000038 catalytic residue [active] 177437000039 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 177437000040 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 177437000041 ATP binding site [chemical binding]; other site 177437000042 putative Mg++ binding site [ion binding]; other site 177437000043 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 177437000044 nucleotide binding region [chemical binding]; other site 177437000045 ATP-binding site [chemical binding]; other site 177437000046 potential frameshift: common BLAST hit: gi|153000221|ref|YP_001365902.1| phage integrase family protein 177437000047 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 177437000048 active site 177437000049 Int/Topo IB signature motif; other site 177437000050 DNA binding site [nucleotide binding] 177437000051 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 177437000052 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 177437000053 Putative transposase; Region: Y2_Tnp; pfam04986 177437000054 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 177437000055 Precorrin-8X methylmutase; Region: CbiC; pfam02570 177437000056 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 177437000057 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 177437000058 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 177437000059 catalytic triad [active] 177437000060 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 177437000061 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 177437000062 endonuclease III; Region: ENDO3c; smart00478 177437000063 minor groove reading motif; other site 177437000064 helix-hairpin-helix signature motif; other site 177437000065 substrate binding pocket [chemical binding]; other site 177437000066 active site 177437000067 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 177437000068 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 177437000069 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 177437000070 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 177437000071 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 177437000072 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_7; cd13133 177437000073 AAA ATPase domain; Region: AAA_16; pfam13191 177437000074 Bacterial transcriptional activator domain; Region: BTAD; smart01043 177437000075 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 177437000076 TPR motif; other site 177437000077 binding surface 177437000078 Response regulator receiver domain; Region: Response_reg; pfam00072 177437000079 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437000080 active site 177437000081 phosphorylation site [posttranslational modification] 177437000082 intermolecular recognition site; other site 177437000083 dimerization interface [polypeptide binding]; other site 177437000084 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 177437000085 dimerization interface [polypeptide binding]; other site 177437000086 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437000087 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 177437000088 putative active site [active] 177437000089 heme pocket [chemical binding]; other site 177437000090 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 177437000091 dimer interface [polypeptide binding]; other site 177437000092 phosphorylation site [posttranslational modification] 177437000093 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 177437000094 ATP binding site [chemical binding]; other site 177437000095 Mg2+ binding site [ion binding]; other site 177437000096 G-X-G motif; other site 177437000097 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 177437000098 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 177437000099 putative ligand binding site [chemical binding]; other site 177437000100 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 177437000101 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 177437000102 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 177437000103 Probable Catalytic site; other site 177437000104 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 177437000105 dimer interface [polypeptide binding]; other site 177437000106 conserved gate region; other site 177437000107 putative PBP binding loops; other site 177437000108 ABC-ATPase subunit interface; other site 177437000109 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 177437000110 dimer interface [polypeptide binding]; other site 177437000111 conserved gate region; other site 177437000112 putative PBP binding loops; other site 177437000113 ABC-ATPase subunit interface; other site 177437000114 hypothetical protein; Provisional; Region: PRK11622 177437000115 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 177437000116 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 177437000117 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 177437000118 Walker A/P-loop; other site 177437000119 ATP binding site [chemical binding]; other site 177437000120 Q-loop/lid; other site 177437000121 ABC transporter signature motif; other site 177437000122 Walker B; other site 177437000123 D-loop; other site 177437000124 H-loop/switch region; other site 177437000125 Phosphotransferase enzyme family; Region: APH; pfam01636 177437000126 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 177437000127 active site 177437000128 substrate binding site [chemical binding]; other site 177437000129 ATP binding site [chemical binding]; other site 177437000130 Putative Fe-S cluster; Region: FeS; cl17515 177437000131 TPR repeat; Region: TPR_11; pfam13414 177437000132 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 177437000133 binding surface 177437000134 TPR motif; other site 177437000135 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437000136 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 177437000137 binding surface 177437000138 TPR motif; other site 177437000139 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437000140 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437000141 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 177437000142 binding surface 177437000143 TPR motif; other site 177437000144 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437000145 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437000146 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 177437000147 binding surface 177437000148 TPR motif; other site 177437000149 multiple promoter invertase; Provisional; Region: mpi; PRK13413 177437000150 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 177437000151 catalytic residues [active] 177437000152 catalytic nucleophile [active] 177437000153 Presynaptic Site I dimer interface [polypeptide binding]; other site 177437000154 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 177437000155 Synaptic Flat tetramer interface [polypeptide binding]; other site 177437000156 Synaptic Site I dimer interface [polypeptide binding]; other site 177437000157 DNA binding site [nucleotide binding] 177437000158 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 177437000159 DNA-binding interface [nucleotide binding]; DNA binding site 177437000160 YHS domain; Region: YHS; pfam04945 177437000161 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 177437000162 Predicted metal-dependent membrane protease [General function prediction only]; Region: COG1266 177437000163 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 177437000164 Soluble P-type ATPase [General function prediction only]; Region: COG4087 177437000165 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 177437000166 Serpentine type 7TM GPCR chemoreceptor Srh; Region: 7TM_GPCR_Srh; cl11665 177437000167 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177437000168 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437000169 Outer membrane efflux protein; Region: OEP; pfam02321 177437000170 Outer membrane efflux protein; Region: OEP; pfam02321 177437000171 Outer membrane efflux protein; Region: OEP; pfam02321 177437000172 Outer membrane efflux protein; Region: OEP; pfam02321 177437000173 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 177437000174 BCCT family transporter; Region: BCCT; pfam02028 177437000175 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 177437000176 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 177437000177 B12 binding site [chemical binding]; other site 177437000178 cobalt ligand [ion binding]; other site 177437000179 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 177437000180 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 177437000181 substrate binding pocket [chemical binding]; other site 177437000182 dimer interface [polypeptide binding]; other site 177437000183 inhibitor binding site; inhibition site 177437000184 pyrrolysine biosynthesis radical SAM protein; Region: pyrrolys_PylB; TIGR03910 177437000185 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 177437000186 active site 177437000187 DNA binding site [nucleotide binding] 177437000188 Int/Topo IB signature motif; other site 177437000189 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177437000190 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 177437000191 homodimer interaction site [polypeptide binding]; other site 177437000192 cofactor binding site; other site 177437000193 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 177437000194 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 177437000195 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 177437000196 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 177437000197 Walker A/P-loop; other site 177437000198 ATP binding site [chemical binding]; other site 177437000199 Q-loop/lid; other site 177437000200 ABC transporter signature motif; other site 177437000201 Walker B; other site 177437000202 D-loop; other site 177437000203 H-loop/switch region; other site 177437000204 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 177437000205 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 177437000206 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 177437000207 Hemerythrin-like domain; Region: Hr-like; cd12108 177437000208 Fe binding site [ion binding]; other site 177437000209 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 177437000210 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_1; cd09319 177437000211 gating phenylalanine in ion channel; other site 177437000212 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 177437000213 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 177437000214 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 177437000215 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 177437000216 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 177437000217 [4Fe-4S] binding site [ion binding]; other site 177437000218 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 177437000219 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 177437000220 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 177437000221 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 177437000222 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 177437000223 molybdopterin cofactor binding site; other site 177437000224 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437000225 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437000226 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177437000227 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437000228 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437000229 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177437000230 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 177437000231 FtsX-like permease family; Region: FtsX; pfam02687 177437000232 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177437000233 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177437000234 Walker A/P-loop; other site 177437000235 ATP binding site [chemical binding]; other site 177437000236 Q-loop/lid; other site 177437000237 ABC transporter signature motif; other site 177437000238 Walker B; other site 177437000239 D-loop; other site 177437000240 H-loop/switch region; other site 177437000241 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 177437000242 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437000243 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 177437000244 ligand binding site [chemical binding]; other site 177437000245 flexible hinge region; other site 177437000246 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 177437000247 Catalytic domain of Protein Kinases; Region: PKc; cd00180 177437000248 active site 177437000249 ATP binding site [chemical binding]; other site 177437000250 substrate binding site [chemical binding]; other site 177437000251 activation loop (A-loop); other site 177437000252 Hemerythrin family; Region: Hemerythrin-like; cl15774 177437000253 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 177437000254 FAD binding site [chemical binding]; other site 177437000255 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 177437000256 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 177437000257 putative catalytic site [active] 177437000258 putative metal binding site [ion binding]; other site 177437000259 putative phosphate binding site [ion binding]; other site 177437000260 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 177437000261 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 177437000262 Methyltransferase domain; Region: Methyltransf_31; pfam13847 177437000263 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 177437000264 S-adenosylmethionine binding site [chemical binding]; other site 177437000265 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 177437000266 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 177437000267 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 177437000268 GAF domain; Region: GAF_3; pfam13492 177437000269 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 177437000270 Walker A motif; other site 177437000271 ATP binding site [chemical binding]; other site 177437000272 Walker B motif; other site 177437000273 arginine finger; other site 177437000274 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 177437000275 peroxiredoxin; Provisional; Region: PRK13189 177437000276 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 177437000277 dimer interface [polypeptide binding]; other site 177437000278 decamer (pentamer of dimers) interface [polypeptide binding]; other site 177437000279 catalytic triad [active] 177437000280 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 177437000281 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437000282 Cysteine-rich domain; Region: CCG; pfam02754 177437000283 hybrid cluster protein; Provisional; Region: PRK05290 177437000284 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 177437000285 ACS interaction site; other site 177437000286 CODH interaction site; other site 177437000287 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 177437000288 ACS interaction site; other site 177437000289 CODH interaction site; other site 177437000290 metal cluster binding site [ion binding]; other site 177437000291 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 177437000292 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177437000293 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 177437000294 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437000295 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 177437000296 ligand binding site [chemical binding]; other site 177437000297 flexible hinge region; other site 177437000298 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 177437000299 putative switch regulator; other site 177437000300 non-specific DNA interactions [nucleotide binding]; other site 177437000301 DNA binding site [nucleotide binding] 177437000302 sequence specific DNA binding site [nucleotide binding]; other site 177437000303 putative cAMP binding site [chemical binding]; other site 177437000304 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 177437000305 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 177437000306 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 177437000307 TIGR03084 family protein; Region: TIGR03084 177437000308 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 177437000309 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 177437000310 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177437000311 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437000312 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 177437000313 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 177437000314 L-aspartate oxidase; Provisional; Region: PRK06175 177437000315 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 177437000316 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 177437000317 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 177437000318 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437000319 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437000320 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177437000321 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 177437000322 S-adenosylmethionine binding site [chemical binding]; other site 177437000323 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 177437000324 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 177437000325 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177437000326 active site 177437000327 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 177437000328 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 177437000329 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437000330 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 177437000331 binding surface 177437000332 TPR motif; other site 177437000333 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 177437000334 binding surface 177437000335 TPR repeat; Region: TPR_11; pfam13414 177437000336 TPR motif; other site 177437000337 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 177437000338 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 177437000339 S-adenosylmethionine binding site [chemical binding]; other site 177437000340 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 177437000341 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 177437000342 substrate binding pocket [chemical binding]; other site 177437000343 membrane-bound complex binding site; other site 177437000344 hinge residues; other site 177437000345 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 177437000346 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 177437000347 Walker A/P-loop; other site 177437000348 ATP binding site [chemical binding]; other site 177437000349 Q-loop/lid; other site 177437000350 ABC transporter signature motif; other site 177437000351 Walker B; other site 177437000352 D-loop; other site 177437000353 H-loop/switch region; other site 177437000354 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 177437000355 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 177437000356 dimer interface [polypeptide binding]; other site 177437000357 conserved gate region; other site 177437000358 putative PBP binding loops; other site 177437000359 ABC-ATPase subunit interface; other site 177437000360 FMN-binding domain; Region: FMN_bind; pfam04205 177437000361 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 177437000362 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 177437000363 intersubunit interface [polypeptide binding]; other site 177437000364 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 177437000365 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 177437000366 ABC-ATPase subunit interface; other site 177437000367 dimer interface [polypeptide binding]; other site 177437000368 putative PBP binding regions; other site 177437000369 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 177437000370 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 177437000371 Walker A/P-loop; other site 177437000372 ATP binding site [chemical binding]; other site 177437000373 Q-loop/lid; other site 177437000374 ABC transporter signature motif; other site 177437000375 Walker B; other site 177437000376 D-loop; other site 177437000377 H-loop/switch region; other site 177437000378 outer membrane porin, OprD family; Region: OprD; pfam03573 177437000379 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 177437000380 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 177437000381 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 177437000382 Bacterial SH3 domain; Region: SH3_3; pfam08239 177437000383 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 177437000384 Ca2+ binding site [ion binding]; other site 177437000385 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437000386 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437000387 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 177437000388 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 177437000389 L-aspartate oxidase; Provisional; Region: PRK06175 177437000390 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 177437000391 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 177437000392 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 177437000393 FAD binding domain; Region: FAD_binding_4; pfam01565 177437000394 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437000395 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 177437000396 BCCT family transporter; Region: BCCT; pfam02028 177437000397 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 177437000398 BCCT family transporter; Region: BCCT; pfam02028 177437000399 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 177437000400 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437000401 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437000402 active site 177437000403 phosphorylation site [posttranslational modification] 177437000404 intermolecular recognition site; other site 177437000405 dimerization interface [polypeptide binding]; other site 177437000406 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 177437000407 Walker A motif; other site 177437000408 ATP binding site [chemical binding]; other site 177437000409 Walker B motif; other site 177437000410 arginine finger; other site 177437000411 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 177437000412 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437000413 substrate binding pocket [chemical binding]; other site 177437000414 membrane-bound complex binding site; other site 177437000415 hinge residues; other site 177437000416 GAF domain; Region: GAF_2; pfam13185 177437000417 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437000418 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 177437000419 dimer interface [polypeptide binding]; other site 177437000420 phosphorylation site [posttranslational modification] 177437000421 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 177437000422 ATP binding site [chemical binding]; other site 177437000423 Mg2+ binding site [ion binding]; other site 177437000424 G-X-G motif; other site 177437000425 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 177437000426 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 177437000427 DNA binding site [nucleotide binding] 177437000428 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 177437000429 potential frameshift: common BLAST hit: gi|189501448|ref|YP_001960918.1| type I site-specific deoxyribonuclease, HsdR family 177437000430 Protein of unknown function DUF45; Region: DUF45; pfam01863 177437000431 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 177437000432 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 177437000433 putative NAD(P) binding site [chemical binding]; other site 177437000434 putative active site [active] 177437000435 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 177437000436 metal binding site 2 [ion binding]; metal-binding site 177437000437 putative DNA binding helix; other site 177437000438 metal binding site 1 [ion binding]; metal-binding site 177437000439 dimer interface [polypeptide binding]; other site 177437000440 structural Zn2+ binding site [ion binding]; other site 177437000441 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 177437000442 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 177437000443 dimer interface [polypeptide binding]; other site 177437000444 active site 177437000445 heme binding site [chemical binding]; other site 177437000446 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 177437000447 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 177437000448 S-adenosylmethionine binding site [chemical binding]; other site 177437000449 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 177437000450 agmatinase; Region: agmatinase; TIGR01230 177437000451 putative active site [active] 177437000452 Mn binding site [ion binding]; other site 177437000453 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 177437000454 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 177437000455 dimer interface [polypeptide binding]; other site 177437000456 active site 177437000457 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177437000458 catalytic residues [active] 177437000459 substrate binding site [chemical binding]; other site 177437000460 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 177437000461 arginine decarboxylase; Provisional; Region: PRK05354 177437000462 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 177437000463 dimer interface [polypeptide binding]; other site 177437000464 active site 177437000465 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177437000466 catalytic residues [active] 177437000467 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 177437000468 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 177437000469 Peptidase family M48; Region: Peptidase_M48; cl12018 177437000470 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 177437000471 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437000472 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437000473 putative substrate translocation pore; other site 177437000474 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 177437000475 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 177437000476 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 177437000477 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 177437000478 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 177437000479 ligand binding site; other site 177437000480 oligomer interface; other site 177437000481 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 177437000482 dimer interface [polypeptide binding]; other site 177437000483 N-terminal domain interface [polypeptide binding]; other site 177437000484 sulfate 1 binding site; other site 177437000485 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 177437000486 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 177437000487 G1 box; other site 177437000488 GTP/Mg2+ binding site [chemical binding]; other site 177437000489 Switch I region; other site 177437000490 G2 box; other site 177437000491 Switch II region; other site 177437000492 G3 box; other site 177437000493 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 177437000494 aspartate ammonia-lyase; Provisional; Region: PRK13353 177437000495 tetramer interface [polypeptide binding]; other site 177437000496 biotin synthase; Provisional; Region: PRK07094 177437000497 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 177437000498 FeS/SAM binding site; other site 177437000499 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 177437000500 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 177437000501 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 177437000502 Walker A/P-loop; other site 177437000503 ATP binding site [chemical binding]; other site 177437000504 Q-loop/lid; other site 177437000505 ABC transporter signature motif; other site 177437000506 Walker B; other site 177437000507 D-loop; other site 177437000508 H-loop/switch region; other site 177437000509 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 177437000510 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 177437000511 dimer interface [polypeptide binding]; other site 177437000512 conserved gate region; other site 177437000513 putative PBP binding loops; other site 177437000514 ABC-ATPase subunit interface; other site 177437000515 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 177437000516 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 177437000517 PAS domain; Region: PAS_9; pfam13426 177437000518 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 177437000519 putative active site [active] 177437000520 heme pocket [chemical binding]; other site 177437000521 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177437000522 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 177437000523 Walker A motif; other site 177437000524 ATP binding site [chemical binding]; other site 177437000525 Walker B motif; other site 177437000526 arginine finger; other site 177437000527 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437000528 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 177437000529 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437000530 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 177437000531 4Fe-4S binding domain; Region: Fer4; pfam00037 177437000532 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 177437000533 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 177437000534 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 177437000535 4Fe-4S binding domain; Region: Fer4; pfam00037 177437000536 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 177437000537 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 177437000538 [4Fe-4S] binding site [ion binding]; other site 177437000539 molybdopterin cofactor binding site; other site 177437000540 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 177437000541 molybdopterin cofactor binding site; other site 177437000542 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cl00323 177437000543 HipA N-terminal domain; Region: Couple_hipA; pfam13657 177437000544 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 177437000545 HipA-like N-terminal domain; Region: HipA_N; pfam07805 177437000546 HipA-like C-terminal domain; Region: HipA_C; pfam07804 177437000547 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 177437000548 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 177437000549 non-specific DNA binding site [nucleotide binding]; other site 177437000550 salt bridge; other site 177437000551 sequence-specific DNA binding site [nucleotide binding]; other site 177437000552 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 177437000553 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 177437000554 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 177437000555 ATP-binding cassette domain similar to the molybdate transporter; Region: ABC_ModC_like; cd03299 177437000556 Walker A/P-loop; other site 177437000557 ATP binding site [chemical binding]; other site 177437000558 Q-loop/lid; other site 177437000559 ABC transporter signature motif; other site 177437000560 Walker B; other site 177437000561 D-loop; other site 177437000562 H-loop/switch region; other site 177437000563 TOBE domain; Region: TOBE_2; pfam08402 177437000564 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 177437000565 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 177437000566 dimer interface [polypeptide binding]; other site 177437000567 conserved gate region; other site 177437000568 putative PBP binding loops; other site 177437000569 ABC-ATPase subunit interface; other site 177437000570 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 177437000571 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 177437000572 substrate binding pocket [chemical binding]; other site 177437000573 membrane-bound complex binding site; other site 177437000574 hinge residues; other site 177437000575 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 177437000576 Low molecular weight phosphatase family; Region: LMWPc; cd00115 177437000577 active site 177437000578 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 177437000579 PAS fold; Region: PAS_3; pfam08447 177437000580 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 177437000581 heme pocket [chemical binding]; other site 177437000582 putative active site [active] 177437000583 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177437000584 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 177437000585 putative active site [active] 177437000586 heme pocket [chemical binding]; other site 177437000587 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437000588 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437000589 metal binding site [ion binding]; metal-binding site 177437000590 active site 177437000591 I-site; other site 177437000592 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 177437000593 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177437000594 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437000595 dimer interface [polypeptide binding]; other site 177437000596 putative CheW interface [polypeptide binding]; other site 177437000597 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 177437000598 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 177437000599 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 177437000600 dimer interface [polypeptide binding]; other site 177437000601 conserved gate region; other site 177437000602 putative PBP binding loops; other site 177437000603 ABC-ATPase subunit interface; other site 177437000604 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 177437000605 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 177437000606 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 177437000607 dimer interface [polypeptide binding]; other site 177437000608 conserved gate region; other site 177437000609 putative PBP binding loops; other site 177437000610 ABC-ATPase subunit interface; other site 177437000611 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 177437000612 Transposase [DNA replication, recombination, and repair]; Region: COG5421 177437000613 PBP superfamily domain; Region: PBP_like_2; cl17296 177437000614 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 177437000615 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 177437000616 Walker A/P-loop; other site 177437000617 ATP binding site [chemical binding]; other site 177437000618 Q-loop/lid; other site 177437000619 ABC transporter signature motif; other site 177437000620 Walker B; other site 177437000621 D-loop; other site 177437000622 H-loop/switch region; other site 177437000623 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 177437000624 PhoU domain; Region: PhoU; pfam01895 177437000625 PhoU domain; Region: PhoU; pfam01895 177437000626 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 177437000627 PHP domain; Region: PHP; pfam02811 177437000628 active site 177437000629 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 177437000630 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437000631 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 177437000632 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 177437000633 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]; Region: COG1107 177437000634 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 177437000635 generic binding surface I; other site 177437000636 generic binding surface II; other site 177437000637 DHH family; Region: DHH; pfam01368 177437000638 CAAX protease self-immunity; Region: Abi; pfam02517 177437000639 YibE/F-like protein; Region: YibE_F; pfam07907 177437000640 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 177437000641 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 177437000642 dimer interface [polypeptide binding]; other site 177437000643 active site 177437000644 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 177437000645 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 177437000646 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 177437000647 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 177437000648 putative active site [active] 177437000649 nucleotide binding site [chemical binding]; other site 177437000650 nudix motif; other site 177437000651 putative metal binding site [ion binding]; other site 177437000652 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437000653 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437000654 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 177437000655 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 177437000656 active site 177437000657 FMN binding site [chemical binding]; other site 177437000658 substrate binding site [chemical binding]; other site 177437000659 putative catalytic residue [active] 177437000660 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 177437000661 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 177437000662 active site 177437000663 FMN binding site [chemical binding]; other site 177437000664 substrate binding site [chemical binding]; other site 177437000665 putative catalytic residue [active] 177437000666 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 177437000667 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 177437000668 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 177437000669 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177437000670 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 177437000671 putative dimerization interface [polypeptide binding]; other site 177437000672 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437000673 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437000674 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 177437000675 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437000676 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 177437000677 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 177437000678 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 177437000679 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 177437000680 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 177437000681 putative active site [active] 177437000682 metal binding site [ion binding]; metal-binding site 177437000683 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 177437000684 active site 177437000685 NAD binding site [chemical binding]; other site 177437000686 metal binding site [ion binding]; metal-binding site 177437000687 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177437000688 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 177437000689 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437000690 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437000691 putative substrate translocation pore; other site 177437000692 HAMP domain; Region: HAMP; pfam00672 177437000693 dimerization interface [polypeptide binding]; other site 177437000694 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 177437000695 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 177437000696 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 177437000697 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 177437000698 ATP binding site [chemical binding]; other site 177437000699 Mg2+ binding site [ion binding]; other site 177437000700 G-X-G motif; other site 177437000701 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 177437000702 anti sigma factor interaction site; other site 177437000703 regulatory phosphorylation site [posttranslational modification]; other site 177437000704 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 177437000705 hybrid cluster protein; Provisional; Region: PRK05290 177437000706 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 177437000707 ACS interaction site; other site 177437000708 CODH interaction site; other site 177437000709 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 177437000710 hybrid metal cluster; other site 177437000711 AAA domain; Region: AAA_22; pfam13401 177437000712 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 177437000713 Walker A motif; other site 177437000714 ATP binding site [chemical binding]; other site 177437000715 Walker B motif; other site 177437000716 Family description; Region: UvrD_C_2; pfam13538 177437000717 HRDC domain; Region: HRDC; pfam00570 177437000718 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 177437000719 active site 177437000720 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 177437000721 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 177437000722 glycogen binding site [chemical binding]; other site 177437000723 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177437000724 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 177437000725 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 177437000726 DNA binding residues [nucleotide binding] 177437000727 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 177437000728 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 177437000729 homotrimer interface [polypeptide binding]; other site 177437000730 Walker A motif; other site 177437000731 GTP binding site [chemical binding]; other site 177437000732 Walker B motif; other site 177437000733 cobyric acid synthase; Provisional; Region: PRK00784 177437000734 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 177437000735 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 177437000736 catalytic triad [active] 177437000737 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 177437000738 homodimer interface [polypeptide binding]; other site 177437000739 Walker A motif; other site 177437000740 ATP binding site [chemical binding]; other site 177437000741 hydroxycobalamin binding site [chemical binding]; other site 177437000742 Walker B motif; other site 177437000743 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 177437000744 active site 177437000745 SAM binding site [chemical binding]; other site 177437000746 homodimer interface [polypeptide binding]; other site 177437000747 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 177437000748 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 177437000749 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 177437000750 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 177437000751 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 177437000752 active site 177437000753 SAM binding site [chemical binding]; other site 177437000754 homodimer interface [polypeptide binding]; other site 177437000755 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 177437000756 active site 177437000757 putative homodimer interface [polypeptide binding]; other site 177437000758 SAM binding site [chemical binding]; other site 177437000759 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 177437000760 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 177437000761 S-adenosylmethionine binding site [chemical binding]; other site 177437000762 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 177437000763 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 177437000764 active site 177437000765 SAM binding site [chemical binding]; other site 177437000766 homodimer interface [polypeptide binding]; other site 177437000767 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 177437000768 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 177437000769 intersubunit interface [polypeptide binding]; other site 177437000770 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 177437000771 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 177437000772 Walker A/P-loop; other site 177437000773 ATP binding site [chemical binding]; other site 177437000774 Q-loop/lid; other site 177437000775 ABC transporter signature motif; other site 177437000776 Walker B; other site 177437000777 D-loop; other site 177437000778 H-loop/switch region; other site 177437000779 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 177437000780 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 177437000781 ABC-ATPase subunit interface; other site 177437000782 dimer interface [polypeptide binding]; other site 177437000783 putative PBP binding regions; other site 177437000784 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 177437000785 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437000786 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; cl00120 177437000787 active site 177437000788 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 177437000789 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177437000790 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437000791 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 177437000792 hypothetical protein; Provisional; Region: PRK10621 177437000793 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177437000794 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177437000795 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 177437000796 dimerization interface [polypeptide binding]; other site 177437000797 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 177437000798 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 177437000799 putative active site [active] 177437000800 heme pocket [chemical binding]; other site 177437000801 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 177437000802 dimer interface [polypeptide binding]; other site 177437000803 phosphorylation site [posttranslational modification] 177437000804 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 177437000805 ATP binding site [chemical binding]; other site 177437000806 Mg2+ binding site [ion binding]; other site 177437000807 G-X-G motif; other site 177437000808 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 177437000809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437000810 active site 177437000811 phosphorylation site [posttranslational modification] 177437000812 intermolecular recognition site; other site 177437000813 dimerization interface [polypeptide binding]; other site 177437000814 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 177437000815 DNA binding site [nucleotide binding] 177437000816 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437000817 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437000818 metal binding site [ion binding]; metal-binding site 177437000819 active site 177437000820 I-site; other site 177437000821 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 177437000822 PhoU domain; Region: PhoU; pfam01895 177437000823 PhoU domain; Region: PhoU; pfam01895 177437000824 phosphate transporter ATP-binding protein; Provisional; Region: PRK14242 177437000825 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 177437000826 Walker A/P-loop; other site 177437000827 ATP binding site [chemical binding]; other site 177437000828 Q-loop/lid; other site 177437000829 ABC transporter signature motif; other site 177437000830 Walker B; other site 177437000831 D-loop; other site 177437000832 H-loop/switch region; other site 177437000833 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 177437000834 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 177437000835 dimer interface [polypeptide binding]; other site 177437000836 conserved gate region; other site 177437000837 putative PBP binding loops; other site 177437000838 ABC-ATPase subunit interface; other site 177437000839 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 177437000840 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 177437000841 dimer interface [polypeptide binding]; other site 177437000842 conserved gate region; other site 177437000843 putative PBP binding loops; other site 177437000844 ABC-ATPase subunit interface; other site 177437000845 PBP superfamily domain; Region: PBP_like_2; cl17296 177437000846 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 177437000847 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 177437000848 ATP binding site [chemical binding]; other site 177437000849 Mg2+ binding site [ion binding]; other site 177437000850 G-X-G motif; other site 177437000851 Response regulator receiver domain; Region: Response_reg; pfam00072 177437000852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437000853 active site 177437000854 phosphorylation site [posttranslational modification] 177437000855 intermolecular recognition site; other site 177437000856 dimerization interface [polypeptide binding]; other site 177437000857 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 177437000858 Rossmann-like domain; Region: Rossmann-like; pfam10727 177437000859 Uncharacterized conserved protein [Function unknown]; Region: COG5495 177437000860 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 177437000861 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 177437000862 oligomerization interface [polypeptide binding]; other site 177437000863 active site 177437000864 metal binding site [ion binding]; metal-binding site 177437000865 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 177437000866 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 177437000867 dimer interface [polypeptide binding]; other site 177437000868 motif 1; other site 177437000869 active site 177437000870 motif 2; other site 177437000871 motif 3; other site 177437000872 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 177437000873 anticodon binding site; other site 177437000874 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 177437000875 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 177437000876 dimer interface [polypeptide binding]; other site 177437000877 anticodon binding site; other site 177437000878 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 177437000879 homodimer interface [polypeptide binding]; other site 177437000880 motif 1; other site 177437000881 active site 177437000882 motif 2; other site 177437000883 GAD domain; Region: GAD; pfam02938 177437000884 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 177437000885 motif 3; other site 177437000886 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177437000887 active site 177437000888 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 177437000889 Septum formation topological specificity factor MinE; Region: MinE; cl00538 177437000890 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 177437000891 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 177437000892 Switch I; other site 177437000893 Switch II; other site 177437000894 septum formation inhibitor; Reviewed; Region: minC; PRK00513 177437000895 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 177437000896 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 177437000897 ATP binding site [chemical binding]; other site 177437000898 Mg2+ binding site [ion binding]; other site 177437000899 G-X-G motif; other site 177437000900 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437000901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437000902 active site 177437000903 phosphorylation site [posttranslational modification] 177437000904 intermolecular recognition site; other site 177437000905 dimerization interface [polypeptide binding]; other site 177437000906 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177437000907 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437000908 active site 177437000909 phosphorylation site [posttranslational modification] 177437000910 intermolecular recognition site; other site 177437000911 dimerization interface [polypeptide binding]; other site 177437000912 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 177437000913 DNA binding residues [nucleotide binding] 177437000914 dimerization interface [polypeptide binding]; other site 177437000915 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 177437000916 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 177437000917 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 177437000918 Peptidase M16C associated; Region: M16C_assoc; pfam08367 177437000919 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 177437000920 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 177437000921 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 177437000922 S-adenosylmethionine binding site [chemical binding]; other site 177437000923 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 177437000924 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437000925 Zn2+ binding site [ion binding]; other site 177437000926 Mg2+ binding site [ion binding]; other site 177437000927 L,L-diaminopimelate aminotransferase; Validated; Region: PRK07590 177437000928 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 177437000929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437000930 homodimer interface [polypeptide binding]; other site 177437000931 catalytic residue [active] 177437000932 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 177437000933 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 177437000934 dimer interface [polypeptide binding]; other site 177437000935 putative functional site; other site 177437000936 putative MPT binding site; other site 177437000937 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional; Region: PRK14498 177437000938 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 177437000939 dimer interface [polypeptide binding]; other site 177437000940 putative functional site; other site 177437000941 putative MPT binding site; other site 177437000942 PBP superfamily domain; Region: PBP_like; pfam12727 177437000943 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 177437000944 dimer interface [polypeptide binding]; other site 177437000945 Citrate synthase; Region: Citrate_synt; pfam00285 177437000946 active site 177437000947 citrylCoA binding site [chemical binding]; other site 177437000948 NADH binding [chemical binding]; other site 177437000949 cationic pore residues; other site 177437000950 oxalacetate/citrate binding site [chemical binding]; other site 177437000951 coenzyme A binding site [chemical binding]; other site 177437000952 catalytic triad [active] 177437000953 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 177437000954 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 177437000955 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 177437000956 Walker A/P-loop; other site 177437000957 ATP binding site [chemical binding]; other site 177437000958 Q-loop/lid; other site 177437000959 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 177437000960 ABC transporter signature motif; other site 177437000961 Walker B; other site 177437000962 D-loop; other site 177437000963 H-loop/switch region; other site 177437000964 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 177437000965 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 177437000966 Walker A/P-loop; other site 177437000967 ATP binding site [chemical binding]; other site 177437000968 Q-loop/lid; other site 177437000969 ABC transporter signature motif; other site 177437000970 Walker B; other site 177437000971 D-loop; other site 177437000972 H-loop/switch region; other site 177437000973 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 177437000974 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 177437000975 Walker A/P-loop; other site 177437000976 ATP binding site [chemical binding]; other site 177437000977 Q-loop/lid; other site 177437000978 ABC transporter signature motif; other site 177437000979 Walker B; other site 177437000980 D-loop; other site 177437000981 H-loop/switch region; other site 177437000982 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 177437000983 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 177437000984 TM-ABC transporter signature motif; other site 177437000985 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437000986 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 177437000987 TM-ABC transporter signature motif; other site 177437000988 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 177437000989 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 177437000990 dimerization interface [polypeptide binding]; other site 177437000991 ligand binding site [chemical binding]; other site 177437000992 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 177437000993 ATP-NAD kinase; Region: NAD_kinase; pfam01513 177437000994 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177437000995 EamA-like transporter family; Region: EamA; pfam00892 177437000996 EamA-like transporter family; Region: EamA; pfam00892 177437000997 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 177437000998 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177437000999 GAF domain; Region: GAF_3; pfam13492 177437001000 PAS domain; Region: PAS_8; pfam13188 177437001001 PAS domain S-box; Region: sensory_box; TIGR00229 177437001002 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 177437001003 dimer interface [polypeptide binding]; other site 177437001004 phosphorylation site [posttranslational modification] 177437001005 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 177437001006 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 177437001007 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 177437001008 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 177437001009 Walker A motif; other site 177437001010 ATP binding site [chemical binding]; other site 177437001011 Walker B motif; other site 177437001012 arginine finger; other site 177437001013 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437001014 Protein of unknown function (DUF554); Region: DUF554; pfam04474 177437001015 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 177437001016 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 177437001017 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 177437001018 CoA binding domain; Region: CoA_binding_2; pfam13380 177437001019 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 177437001020 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437001021 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 177437001022 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 177437001023 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 177437001024 molybdopterin cofactor binding site; other site 177437001025 Putative zinc-finger; Region: zf-HC2; pfam13490 177437001026 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 177437001027 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177437001028 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 177437001029 DNA binding residues [nucleotide binding] 177437001030 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 177437001031 Ligand Binding Site [chemical binding]; other site 177437001032 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 177437001033 Ligand Binding Site [chemical binding]; other site 177437001034 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 177437001035 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 177437001036 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 177437001037 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 177437001038 Ligand binding site [chemical binding]; other site 177437001039 Electron transfer flavoprotein domain; Region: ETF; pfam01012 177437001040 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 177437001041 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 177437001042 active site 177437001043 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 177437001044 catalytic core [active] 177437001045 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437001046 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437001047 active site 177437001048 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437001049 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437001050 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 177437001051 Phosphotransferase enzyme family; Region: APH; pfam01636 177437001052 putative active site [active] 177437001053 putative substrate binding site [chemical binding]; other site 177437001054 ATP binding site [chemical binding]; other site 177437001055 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 177437001056 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 177437001057 S-adenosylmethionine binding site [chemical binding]; other site 177437001058 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 177437001059 short chain dehydrogenase; Provisional; Region: PRK07035 177437001060 classical (c) SDRs; Region: SDR_c; cd05233 177437001061 NAD(P) binding site [chemical binding]; other site 177437001062 active site 177437001063 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 177437001064 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437001065 active site 177437001066 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 177437001067 Ferredoxin [Energy production and conversion]; Region: COG1146 177437001068 4Fe-4S binding domain; Region: Fer4; cl02805 177437001069 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 177437001070 putative FMN binding site [chemical binding]; other site 177437001071 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 177437001072 putative active site [active] 177437001073 putative catalytic site [active] 177437001074 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 177437001075 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 177437001076 NAD binding site [chemical binding]; other site 177437001077 homodimer interface [polypeptide binding]; other site 177437001078 active site 177437001079 Transcriptional regulators [Transcription]; Region: FadR; COG2186 177437001080 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437001081 DNA-binding site [nucleotide binding]; DNA binding site 177437001082 FCD domain; Region: FCD; pfam07729 177437001083 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 177437001084 aspartate racemase; Region: asp_race; TIGR00035 177437001085 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 177437001086 homotrimer interaction site [polypeptide binding]; other site 177437001087 putative active site [active] 177437001088 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 177437001089 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 177437001090 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177437001091 catalytic residue [active] 177437001092 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 177437001093 histidinol dehydrogenase; Region: hisD; TIGR00069 177437001094 NAD binding site [chemical binding]; other site 177437001095 dimerization interface [polypeptide binding]; other site 177437001096 product binding site; other site 177437001097 substrate binding site [chemical binding]; other site 177437001098 zinc binding site [ion binding]; other site 177437001099 catalytic residues [active] 177437001100 DctM-like transporters; Region: DctM; pfam06808 177437001101 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177437001102 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177437001103 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437001104 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177437001105 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437001106 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 177437001107 Cysteine-rich domain; Region: CCG; pfam02754 177437001108 Cysteine-rich domain; Region: CCG; pfam02754 177437001109 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 177437001110 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 177437001111 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 177437001112 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 177437001113 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 177437001114 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 177437001115 hydroxyglutarate oxidase; Provisional; Region: PRK11728 177437001116 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 177437001117 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 177437001118 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 177437001119 active site 177437001120 FMN binding site [chemical binding]; other site 177437001121 2,4-decadienoyl-CoA binding site; other site 177437001122 catalytic residue [active] 177437001123 4Fe-4S cluster binding site [ion binding]; other site 177437001124 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 177437001125 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177437001126 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 177437001127 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177437001128 DNA binding residues [nucleotide binding] 177437001129 glutamate dehydrogenase; Provisional; Region: PRK09414 177437001130 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 177437001131 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 177437001132 NAD(P) binding site [chemical binding]; other site 177437001133 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437001134 active site 177437001135 phosphorylation site [posttranslational modification] 177437001136 intermolecular recognition site; other site 177437001137 dimerization interface [polypeptide binding]; other site 177437001138 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437001139 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177437001140 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 177437001141 XK-related protein; Region: XK-related; pfam09815 177437001142 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 177437001143 glycogen binding site [chemical binding]; other site 177437001144 Response regulator receiver domain; Region: Response_reg; pfam00072 177437001145 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437001146 active site 177437001147 phosphorylation site [posttranslational modification] 177437001148 intermolecular recognition site; other site 177437001149 dimerization interface [polypeptide binding]; other site 177437001150 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 177437001151 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437001152 substrate binding pocket [chemical binding]; other site 177437001153 membrane-bound complex binding site; other site 177437001154 hinge residues; other site 177437001155 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177437001156 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 177437001157 dimer interface [polypeptide binding]; other site 177437001158 conserved gate region; other site 177437001159 putative PBP binding loops; other site 177437001160 ABC-ATPase subunit interface; other site 177437001161 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177437001162 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437001163 Walker A/P-loop; other site 177437001164 ATP binding site [chemical binding]; other site 177437001165 Q-loop/lid; other site 177437001166 ABC transporter signature motif; other site 177437001167 Walker B; other site 177437001168 D-loop; other site 177437001169 H-loop/switch region; other site 177437001170 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 177437001171 dimer interface [polypeptide binding]; other site 177437001172 conserved gate region; other site 177437001173 putative PBP binding loops; other site 177437001174 ABC-ATPase subunit interface; other site 177437001175 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 177437001176 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 177437001177 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 177437001178 acyl-activating enzyme (AAE) consensus motif; other site 177437001179 putative AMP binding site [chemical binding]; other site 177437001180 putative active site [active] 177437001181 putative CoA binding site [chemical binding]; other site 177437001182 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 177437001183 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437001184 active site 177437001185 phosphorylation site [posttranslational modification] 177437001186 intermolecular recognition site; other site 177437001187 dimerization interface [polypeptide binding]; other site 177437001188 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 177437001189 DNA binding site [nucleotide binding] 177437001190 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437001191 HAMP domain; Region: HAMP; pfam00672 177437001192 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 177437001193 dimer interface [polypeptide binding]; other site 177437001194 phosphorylation site [posttranslational modification] 177437001195 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 177437001196 ATP binding site [chemical binding]; other site 177437001197 Mg2+ binding site [ion binding]; other site 177437001198 G-X-G motif; other site 177437001199 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437001200 Coenzyme A binding pocket [chemical binding]; other site 177437001201 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 177437001202 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 177437001203 [4Fe-4S] binding site [ion binding]; other site 177437001204 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 177437001205 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 177437001206 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 177437001207 molybdopterin cofactor binding site; other site 177437001208 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 177437001209 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 177437001210 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 177437001211 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177437001212 Formylmethanofuran dehydrogenase subunit E [Energy production and conversion]; Region: COG2191 177437001213 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 177437001214 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 177437001215 putative MPT binding site; other site 177437001216 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 177437001217 transcriptional regulator FimZ; Provisional; Region: PRK09935 177437001218 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437001219 phosphorylation site [posttranslational modification] 177437001220 intermolecular recognition site; other site 177437001221 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177437001222 glutamate dehydrogenase 2; Provisional; Region: PTZ00324 177437001223 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 177437001224 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 177437001225 dimerization interface [polypeptide binding]; other site 177437001226 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437001227 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437001228 metal binding site [ion binding]; metal-binding site 177437001229 active site 177437001230 I-site; other site 177437001231 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 177437001232 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177437001233 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 177437001234 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 177437001235 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 177437001236 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 177437001237 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 177437001238 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 177437001239 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 177437001240 active site 177437001241 FMN binding site [chemical binding]; other site 177437001242 substrate binding site [chemical binding]; other site 177437001243 putative catalytic residue [active] 177437001244 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 177437001245 S-adenosylmethionine binding site [chemical binding]; other site 177437001246 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437001247 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 177437001248 putative active site [active] 177437001249 heme pocket [chemical binding]; other site 177437001250 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 177437001251 dimer interface [polypeptide binding]; other site 177437001252 phosphorylation site [posttranslational modification] 177437001253 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 177437001254 ATP binding site [chemical binding]; other site 177437001255 Mg2+ binding site [ion binding]; other site 177437001256 G-X-G motif; other site 177437001257 Response regulator receiver domain; Region: Response_reg; pfam00072 177437001258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437001259 active site 177437001260 phosphorylation site [posttranslational modification] 177437001261 intermolecular recognition site; other site 177437001262 dimerization interface [polypeptide binding]; other site 177437001263 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 177437001264 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 177437001265 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 177437001266 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 177437001267 NAD binding site [chemical binding]; other site 177437001268 catalytic residues [active] 177437001269 substrate binding site [chemical binding]; other site 177437001270 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 177437001271 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 177437001272 Walker A motif; other site 177437001273 ATP binding site [chemical binding]; other site 177437001274 Walker B motif; other site 177437001275 arginine finger; other site 177437001276 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437001277 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 177437001278 active site residue [active] 177437001279 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 177437001280 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 177437001281 metal ion-dependent adhesion site (MIDAS); other site 177437001282 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437001283 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177437001284 ligand binding site [chemical binding]; other site 177437001285 BON domain; Region: BON; pfam04972 177437001286 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 177437001287 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 177437001288 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 177437001289 Walker A/P-loop; other site 177437001290 ATP binding site [chemical binding]; other site 177437001291 Q-loop/lid; other site 177437001292 ABC transporter signature motif; other site 177437001293 Walker B; other site 177437001294 D-loop; other site 177437001295 H-loop/switch region; other site 177437001296 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 177437001297 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 177437001298 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 177437001299 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 177437001300 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 177437001301 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 177437001302 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 177437001303 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 177437001304 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 177437001305 PAS domain; Region: PAS_9; pfam13426 177437001306 putative active site [active] 177437001307 heme pocket [chemical binding]; other site 177437001308 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177437001309 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 177437001310 Walker A motif; other site 177437001311 ATP binding site [chemical binding]; other site 177437001312 Walker B motif; other site 177437001313 arginine finger; other site 177437001314 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437001315 lysine-2,3-aminomutase; Region: lys_2_3_AblA; TIGR03820 177437001316 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 177437001317 FeS/SAM binding site; other site 177437001318 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 177437001319 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 177437001320 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 177437001321 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 177437001322 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 177437001323 ATP binding site [chemical binding]; other site 177437001324 putative Mg++ binding site [ion binding]; other site 177437001325 C-terminal putative phospholipase D-like domain of uncharacterized prokaryotic HKD family nucleases fused to DEAD/DEAH box helicases; Region: PLDc_C_DEXD_like; cd09126 177437001326 PLD-like domain; Region: PLDc_2; pfam13091 177437001327 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 177437001328 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 177437001329 active site 177437001330 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 177437001331 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 177437001332 Catalytic site [active] 177437001333 Y-family of DNA polymerases; Region: PolY; cl12025 177437001334 Y-family of DNA polymerases; Region: PolY; cl12025 177437001335 Y-family of DNA polymerases; Region: PolY; cl12025 177437001336 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 177437001337 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 177437001338 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 177437001339 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 177437001340 Predicted transcriptional regulator [Transcription]; Region: COG1959 177437001341 Transcriptional regulator; Region: Rrf2; pfam02082 177437001342 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 177437001343 Transglycosylase SLT domain; Region: SLT_2; pfam13406 177437001344 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 177437001345 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177437001346 catalytic residue [active] 177437001347 DNA repair protein RadA; Provisional; Region: PRK11823 177437001348 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 177437001349 Walker A motif/ATP binding site; other site 177437001350 ATP binding site [chemical binding]; other site 177437001351 Walker B motif; other site 177437001352 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 177437001353 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 177437001354 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 177437001355 S-adenosylmethionine binding site [chemical binding]; other site 177437001356 hypothetical protein; Validated; Region: PRK00110 177437001357 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 177437001358 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 177437001359 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 177437001360 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437001361 acyl-activating enzyme (AAE) consensus motif; other site 177437001362 AMP binding site [chemical binding]; other site 177437001363 active site 177437001364 CoA binding site [chemical binding]; other site 177437001365 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 177437001366 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 177437001367 nucleotide binding site [chemical binding]; other site 177437001368 NEF interaction site [polypeptide binding]; other site 177437001369 SBD interface [polypeptide binding]; other site 177437001370 GrpE; Region: GrpE; pfam01025 177437001371 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 177437001372 dimer interface [polypeptide binding]; other site 177437001373 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 177437001374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 177437001375 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 177437001376 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 177437001377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 177437001378 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 177437001379 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 177437001380 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 177437001381 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 177437001382 Predicted oxidoreductase [General function prediction only]; Region: COG3573 177437001383 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 177437001384 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 177437001385 active site 177437001386 catalytic tetrad [active] 177437001387 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 177437001388 Domain of unknown function (DUF364); Region: DUF364; pfam04016 177437001389 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 177437001390 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 177437001391 FeS/SAM binding site; other site 177437001392 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. This...; Region: NifX_NifB; cl00252 177437001393 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 177437001394 NMT1/THI5 like; Region: NMT1; pfam09084 177437001395 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 177437001396 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 177437001397 catalytic core [active] 177437001398 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 177437001399 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 177437001400 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 177437001401 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 177437001402 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 177437001403 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 177437001404 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 177437001405 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 177437001406 putative NAD(P) binding site [chemical binding]; other site 177437001407 homodimer interface [polypeptide binding]; other site 177437001408 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 177437001409 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 177437001410 dimer interface [polypeptide binding]; other site 177437001411 active site 177437001412 glycine loop; other site 177437001413 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 177437001414 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437001415 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 177437001416 FeS/SAM binding site; other site 177437001417 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 177437001418 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 177437001419 dimer interface [polypeptide binding]; other site 177437001420 substrate binding site [chemical binding]; other site 177437001421 ATP binding site [chemical binding]; other site 177437001422 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 177437001423 NMT1/THI5 like; Region: NMT1; pfam09084 177437001424 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 177437001425 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 177437001426 dimer interface [polypeptide binding]; other site 177437001427 conserved gate region; other site 177437001428 putative PBP binding loops; other site 177437001429 ABC-ATPase subunit interface; other site 177437001430 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 177437001431 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 177437001432 Walker A/P-loop; other site 177437001433 ATP binding site [chemical binding]; other site 177437001434 Q-loop/lid; other site 177437001435 ABC transporter signature motif; other site 177437001436 Walker B; other site 177437001437 D-loop; other site 177437001438 H-loop/switch region; other site 177437001439 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 177437001440 GIY-YIG motif/motif A; other site 177437001441 putative active site [active] 177437001442 putative metal binding site [ion binding]; other site 177437001443 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 177437001444 anti sigma factor interaction site; other site 177437001445 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 177437001446 regulatory phosphorylation site [posttranslational modification]; other site 177437001447 trigger factor; Region: tig; TIGR00115 177437001448 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 177437001449 Clp protease; Region: CLP_protease; pfam00574 177437001450 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 177437001451 oligomer interface [polypeptide binding]; other site 177437001452 active site residues [active] 177437001453 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 177437001454 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 177437001455 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 177437001456 Walker A motif; other site 177437001457 ATP binding site [chemical binding]; other site 177437001458 Walker B motif; other site 177437001459 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 177437001460 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 177437001461 Found in ATP-dependent protease La (LON); Region: LON; smart00464 177437001462 Found in ATP-dependent protease La (LON); Region: LON; smart00464 177437001463 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 177437001464 Walker A motif; other site 177437001465 ATP binding site [chemical binding]; other site 177437001466 Walker B motif; other site 177437001467 arginine finger; other site 177437001468 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 177437001469 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 177437001470 tartrate dehydrogenase; Region: TTC; TIGR02089 177437001471 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 177437001472 CoA binding domain; Region: CoA_binding_2; pfam13380 177437001473 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 177437001474 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 177437001475 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 177437001476 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 177437001477 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 177437001478 substrate binding site [chemical binding]; other site 177437001479 oxyanion hole (OAH) forming residues; other site 177437001480 trimer interface [polypeptide binding]; other site 177437001481 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 177437001482 DNA-binding site [nucleotide binding]; DNA binding site 177437001483 RNA-binding motif; other site 177437001484 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 177437001485 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 177437001486 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 177437001487 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437001488 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437001489 4Fe-4S binding domain; Region: Fer4; cl02805 177437001490 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 177437001491 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437001492 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 177437001493 Ferredoxin [Energy production and conversion]; Region: COG1146 177437001494 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437001495 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 177437001496 Flagellin N-methylase; Region: FliB; pfam03692 177437001497 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 177437001498 classical (c) SDRs; Region: SDR_c; cd05233 177437001499 NAD(P) binding site [chemical binding]; other site 177437001500 active site 177437001501 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 177437001502 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437001503 Zn2+ binding site [ion binding]; other site 177437001504 Mg2+ binding site [ion binding]; other site 177437001505 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 177437001506 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 177437001507 nucleoside/Zn binding site; other site 177437001508 dimer interface [polypeptide binding]; other site 177437001509 catalytic motif [active] 177437001510 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 177437001511 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 177437001512 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 177437001513 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 177437001514 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 177437001515 23S rRNA binding site [nucleotide binding]; other site 177437001516 L21 binding site [polypeptide binding]; other site 177437001517 L13 binding site [polypeptide binding]; other site 177437001518 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 177437001519 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 177437001520 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 177437001521 dimer interface [polypeptide binding]; other site 177437001522 motif 1; other site 177437001523 active site 177437001524 motif 2; other site 177437001525 motif 3; other site 177437001526 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 177437001527 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 177437001528 putative tRNA-binding site [nucleotide binding]; other site 177437001529 B3/4 domain; Region: B3_4; pfam03483 177437001530 tRNA synthetase B5 domain; Region: B5; pfam03484 177437001531 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 177437001532 dimer interface [polypeptide binding]; other site 177437001533 motif 1; other site 177437001534 motif 3; other site 177437001535 motif 2; other site 177437001536 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 177437001537 Sm and related proteins; Region: Sm_like; cl00259 177437001538 ribosome maturation protein RimP; Reviewed; Region: PRK00092 177437001539 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 177437001540 putative oligomer interface [polypeptide binding]; other site 177437001541 putative RNA binding site [nucleotide binding]; other site 177437001542 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 177437001543 NusA N-terminal domain; Region: NusA_N; pfam08529 177437001544 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 177437001545 RNA binding site [nucleotide binding]; other site 177437001546 homodimer interface [polypeptide binding]; other site 177437001547 NusA-like KH domain; Region: KH_5; pfam13184 177437001548 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 177437001549 G-X-X-G motif; other site 177437001550 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 177437001551 translation initiation factor IF-2; Region: IF-2; TIGR00487 177437001552 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 177437001553 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 177437001554 G1 box; other site 177437001555 putative GEF interaction site [polypeptide binding]; other site 177437001556 GTP/Mg2+ binding site [chemical binding]; other site 177437001557 Switch I region; other site 177437001558 G2 box; other site 177437001559 G3 box; other site 177437001560 Switch II region; other site 177437001561 G4 box; other site 177437001562 G5 box; other site 177437001563 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 177437001564 Translation-initiation factor 2; Region: IF-2; pfam11987 177437001565 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 177437001566 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 177437001567 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 177437001568 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 177437001569 RNA binding site [nucleotide binding]; other site 177437001570 active site 177437001571 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 177437001572 16S/18S rRNA binding site [nucleotide binding]; other site 177437001573 S13e-L30e interaction site [polypeptide binding]; other site 177437001574 25S rRNA binding site [nucleotide binding]; other site 177437001575 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 177437001576 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 177437001577 RNase E interface [polypeptide binding]; other site 177437001578 trimer interface [polypeptide binding]; other site 177437001579 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 177437001580 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 177437001581 RNase E interface [polypeptide binding]; other site 177437001582 trimer interface [polypeptide binding]; other site 177437001583 active site 177437001584 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 177437001585 putative nucleic acid binding region [nucleotide binding]; other site 177437001586 G-X-X-G motif; other site 177437001587 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 177437001588 RNA binding site [nucleotide binding]; other site 177437001589 domain interface; other site 177437001590 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 177437001591 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 177437001592 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 177437001593 tellurite resistance protein terB; Region: terB; cd07176 177437001594 putative metal binding site [ion binding]; other site 177437001595 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437001596 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437001597 metal binding site [ion binding]; metal-binding site 177437001598 active site 177437001599 I-site; other site 177437001600 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 177437001601 pantoate--beta-alanine ligase; Region: panC; TIGR00018 177437001602 Pantoate-beta-alanine ligase; Region: PanC; cd00560 177437001603 active site 177437001604 ATP-binding site [chemical binding]; other site 177437001605 pantoate-binding site; other site 177437001606 HXXH motif; other site 177437001607 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437001608 Zn2+ binding site [ion binding]; other site 177437001609 Mg2+ binding site [ion binding]; other site 177437001610 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 177437001611 Walker A motif; other site 177437001612 shikimate kinase; Reviewed; Region: aroK; PRK00131 177437001613 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 177437001614 ADP binding site [chemical binding]; other site 177437001615 magnesium binding site [ion binding]; other site 177437001616 putative shikimate binding site; other site 177437001617 Helix-turn-helix domain; Region: HTH_17; pfam12728 177437001618 PBP superfamily domain; Region: PBP_like; pfam12727 177437001619 alanine racemase; Reviewed; Region: alr; PRK00053 177437001620 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 177437001621 active site 177437001622 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177437001623 dimer interface [polypeptide binding]; other site 177437001624 substrate binding site [chemical binding]; other site 177437001625 catalytic residues [active] 177437001626 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 177437001627 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 177437001628 FeS/SAM binding site; other site 177437001629 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 177437001630 ATP cone domain; Region: ATP-cone; pfam03477 177437001631 Class III ribonucleotide reductase; Region: RNR_III; cd01675 177437001632 effector binding site; other site 177437001633 active site 177437001634 Zn binding site [ion binding]; other site 177437001635 glycine loop; other site 177437001636 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 177437001637 putative active site [active] 177437001638 putative CoA binding site [chemical binding]; other site 177437001639 nudix motif; other site 177437001640 metal binding site [ion binding]; metal-binding site 177437001641 Ubiquitin-like proteins; Region: UBQ; cl00155 177437001642 charged pocket; other site 177437001643 hydrophobic patch; other site 177437001644 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 177437001645 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 177437001646 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 177437001647 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 177437001648 hydroxyglutarate oxidase; Provisional; Region: PRK11728 177437001649 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 177437001650 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 177437001651 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437001652 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437001653 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 177437001654 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 177437001655 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 177437001656 Walker A/P-loop; other site 177437001657 ATP binding site [chemical binding]; other site 177437001658 Q-loop/lid; other site 177437001659 ABC transporter signature motif; other site 177437001660 Walker B; other site 177437001661 D-loop; other site 177437001662 H-loop/switch region; other site 177437001663 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 177437001664 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 177437001665 Walker A/P-loop; other site 177437001666 ATP binding site [chemical binding]; other site 177437001667 Q-loop/lid; other site 177437001668 ABC transporter signature motif; other site 177437001669 Walker B; other site 177437001670 D-loop; other site 177437001671 H-loop/switch region; other site 177437001672 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 177437001673 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 177437001674 TM-ABC transporter signature motif; other site 177437001675 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437001676 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 177437001677 TM-ABC transporter signature motif; other site 177437001678 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 177437001679 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 177437001680 dimerization interface [polypeptide binding]; other site 177437001681 ligand binding site [chemical binding]; other site 177437001682 Transcriptional regulators [Transcription]; Region: FadR; COG2186 177437001683 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437001684 DNA-binding site [nucleotide binding]; DNA binding site 177437001685 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 177437001686 YGGT family; Region: YGGT; pfam02325 177437001687 DivIVA protein; Region: DivIVA; pfam05103 177437001688 DivIVA domain; Region: DivI1A_domain; TIGR03544 177437001689 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 177437001690 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 177437001691 Walker A motif; other site 177437001692 ATP binding site [chemical binding]; other site 177437001693 Walker B motif; other site 177437001694 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 177437001695 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 177437001696 Walker A motif; other site 177437001697 ATP binding site [chemical binding]; other site 177437001698 Walker B motif; other site 177437001699 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 177437001700 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437001701 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 177437001702 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 177437001703 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 177437001704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 177437001705 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 177437001706 nucleotide binding site [chemical binding]; other site 177437001707 YbbR-like protein; Region: YbbR; pfam07949 177437001708 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 177437001709 dihydropteroate synthase; Region: DHPS; TIGR01496 177437001710 substrate binding pocket [chemical binding]; other site 177437001711 dimer interface [polypeptide binding]; other site 177437001712 inhibitor binding site; inhibition site 177437001713 FtsH Extracellular; Region: FtsH_ext; pfam06480 177437001714 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 177437001715 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 177437001716 Walker A motif; other site 177437001717 ATP binding site [chemical binding]; other site 177437001718 Walker B motif; other site 177437001719 arginine finger; other site 177437001720 Peptidase family M41; Region: Peptidase_M41; pfam01434 177437001721 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 177437001722 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 177437001723 Ligand Binding Site [chemical binding]; other site 177437001724 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 177437001725 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 177437001726 Walker A/P-loop; other site 177437001727 ATP binding site [chemical binding]; other site 177437001728 Q-loop/lid; other site 177437001729 ABC transporter signature motif; other site 177437001730 Walker B; other site 177437001731 D-loop; other site 177437001732 H-loop/switch region; other site 177437001733 TOBE domain; Region: TOBE; pfam03459 177437001734 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 177437001735 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 177437001736 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 177437001737 dimer interface [polypeptide binding]; other site 177437001738 conserved gate region; other site 177437001739 putative PBP binding loops; other site 177437001740 ABC-ATPase subunit interface; other site 177437001741 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 177437001742 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 177437001743 dimer interface [polypeptide binding]; other site 177437001744 conserved gate region; other site 177437001745 putative PBP binding loops; other site 177437001746 ABC-ATPase subunit interface; other site 177437001747 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 177437001748 mce related protein; Region: MCE; pfam02470 177437001749 Protein of unknown function (DUF1178); Region: DUF1178; cl17833 177437001750 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 177437001751 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 177437001752 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 177437001753 PhoU domain; Region: PhoU; pfam01895 177437001754 PhoU domain; Region: PhoU; pfam01895 177437001755 B12 binding domain; Region: B12-binding; pfam02310 177437001756 B12 binding site [chemical binding]; other site 177437001757 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 177437001758 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 177437001759 FeS/SAM binding site; other site 177437001760 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 177437001761 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 177437001762 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 177437001763 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 177437001764 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 177437001765 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177437001766 active site 177437001767 EamA-like transporter family; Region: EamA; pfam00892 177437001768 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 177437001769 EamA-like transporter family; Region: EamA; pfam00892 177437001770 glutamate racemase; Provisional; Region: PRK00865 177437001771 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 177437001772 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 177437001773 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 177437001774 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177437001775 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 177437001776 DNA binding residues [nucleotide binding] 177437001777 MarR family; Region: MarR_2; pfam12802 177437001778 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 177437001779 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177437001780 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; smart00790 177437001781 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 177437001782 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 177437001783 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 177437001784 hypothetical protein; Reviewed; Region: PRK09588 177437001785 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 177437001786 Protein of unknown function (DUF342); Region: DUF342; pfam03961 177437001787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 177437001788 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 177437001789 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 177437001790 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 177437001791 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177437001792 active site 177437001793 primosomal protein N' Region: priA; TIGR00595 177437001794 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 177437001795 ATP binding site [chemical binding]; other site 177437001796 putative Mg++ binding site [ion binding]; other site 177437001797 GAF domain; Region: GAF_3; pfam13492 177437001798 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 177437001799 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177437001800 Walker A motif; other site 177437001801 ATP binding site [chemical binding]; other site 177437001802 Walker B motif; other site 177437001803 arginine finger; other site 177437001804 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 177437001805 putative deacylase active site [active] 177437001806 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 177437001807 CoA binding domain; Region: CoA_binding_2; pfam13380 177437001808 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 177437001809 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 177437001810 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177437001811 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177437001812 Walker A/P-loop; other site 177437001813 ATP binding site [chemical binding]; other site 177437001814 Q-loop/lid; other site 177437001815 ABC transporter signature motif; other site 177437001816 Walker B; other site 177437001817 D-loop; other site 177437001818 H-loop/switch region; other site 177437001819 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177437001820 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 177437001821 dimer interface [polypeptide binding]; other site 177437001822 conserved gate region; other site 177437001823 putative PBP binding loops; other site 177437001824 ABC-ATPase subunit interface; other site 177437001825 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 177437001826 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 177437001827 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 177437001828 dimer interface [polypeptide binding]; other site 177437001829 conserved gate region; other site 177437001830 putative PBP binding loops; other site 177437001831 ABC-ATPase subunit interface; other site 177437001832 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 177437001833 membrane-bound complex binding site; other site 177437001834 hinge residues; other site 177437001835 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 177437001836 substrate binding pocket [chemical binding]; other site 177437001837 WYL domain; Region: WYL; pfam13280 177437001838 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 177437001839 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 177437001840 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 177437001841 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 177437001842 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 177437001843 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 177437001844 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 177437001845 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 177437001846 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 177437001847 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 177437001848 Type II restriction endonuclease (RE_Alw26IDE); Region: RE_Alw26IDE; pfam09665 177437001849 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 177437001850 Peptidase family U32; Region: Peptidase_U32; pfam01136 177437001851 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 177437001852 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437001853 M6 family metalloprotease domain; Region: M6dom_TIGR03296 177437001854 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437001855 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437001856 metal binding site [ion binding]; metal-binding site 177437001857 active site 177437001858 I-site; other site 177437001859 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 177437001860 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 177437001861 phosphorylation site [posttranslational modification] 177437001862 dimer interface [polypeptide binding]; other site 177437001863 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 177437001864 ATP binding site [chemical binding]; other site 177437001865 Mg2+ binding site [ion binding]; other site 177437001866 G-X-G motif; other site 177437001867 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437001868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437001869 active site 177437001870 phosphorylation site [posttranslational modification] 177437001871 intermolecular recognition site; other site 177437001872 dimerization interface [polypeptide binding]; other site 177437001873 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 177437001874 Walker A motif; other site 177437001875 ATP binding site [chemical binding]; other site 177437001876 Walker B motif; other site 177437001877 arginine finger; other site 177437001878 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437001879 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 177437001880 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177437001881 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 177437001882 DNA binding residues [nucleotide binding] 177437001883 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 177437001884 dimer interface [polypeptide binding]; other site 177437001885 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 177437001886 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177437001887 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437001888 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437001889 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177437001890 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177437001891 Walker A/P-loop; other site 177437001892 ATP binding site [chemical binding]; other site 177437001893 Q-loop/lid; other site 177437001894 ABC transporter signature motif; other site 177437001895 Walker B; other site 177437001896 D-loop; other site 177437001897 H-loop/switch region; other site 177437001898 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177437001899 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 177437001900 FtsX-like permease family; Region: FtsX; pfam02687 177437001901 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 177437001902 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; cl17608 177437001903 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 177437001904 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177437001905 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 177437001906 HAMP domain; Region: HAMP; pfam00672 177437001907 dimerization interface [polypeptide binding]; other site 177437001908 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 177437001909 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 177437001910 ligand binding site [chemical binding]; other site 177437001911 homodimer interface [polypeptide binding]; other site 177437001912 NAD(P) binding site [chemical binding]; other site 177437001913 trimer interface B [polypeptide binding]; other site 177437001914 trimer interface A [polypeptide binding]; other site 177437001915 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 177437001916 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 177437001917 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 177437001918 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 177437001919 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 177437001920 dimerization interface [polypeptide binding]; other site 177437001921 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437001922 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 177437001923 putative active site [active] 177437001924 heme pocket [chemical binding]; other site 177437001925 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 177437001926 dimer interface [polypeptide binding]; other site 177437001927 phosphorylation site [posttranslational modification] 177437001928 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 177437001929 ATP binding site [chemical binding]; other site 177437001930 Mg2+ binding site [ion binding]; other site 177437001931 G-X-G motif; other site 177437001932 Response regulator receiver domain; Region: Response_reg; pfam00072 177437001933 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437001934 active site 177437001935 phosphorylation site [posttranslational modification] 177437001936 intermolecular recognition site; other site 177437001937 dimerization interface [polypeptide binding]; other site 177437001938 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 177437001939 putative catalytic site [active] 177437001940 putative metal binding site [ion binding]; other site 177437001941 putative phosphate binding site [ion binding]; other site 177437001942 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177437001943 hypothetical protein; Provisional; Region: PRK04164 177437001944 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 177437001945 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 177437001946 EamA-like transporter family; Region: EamA; pfam00892 177437001947 EamA-like transporter family; Region: EamA; pfam00892 177437001948 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 177437001949 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 177437001950 CoenzymeA binding site [chemical binding]; other site 177437001951 subunit interaction site [polypeptide binding]; other site 177437001952 PHB binding site; other site 177437001953 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 177437001954 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 177437001955 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 177437001956 active site 177437001957 dimer interface [polypeptide binding]; other site 177437001958 metal binding site [ion binding]; metal-binding site 177437001959 Protein of unknown function (DUF867); Region: DUF867; pfam05908 177437001960 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; cl00246 177437001961 FAD binding site [chemical binding]; other site 177437001962 Putative transmembrane protein (PGPGW); Region: PGPGW; pfam09656 177437001963 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 177437001964 putative catalytic site [active] 177437001965 putative metal binding site [ion binding]; other site 177437001966 putative phosphate binding site [ion binding]; other site 177437001967 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 177437001968 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 177437001969 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 177437001970 putative active site [active] 177437001971 catalytic site [active] 177437001972 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 177437001973 putative active site [active] 177437001974 catalytic site [active] 177437001975 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 177437001976 dimerization interface [polypeptide binding]; other site 177437001977 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177437001978 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437001979 dimer interface [polypeptide binding]; other site 177437001980 putative CheW interface [polypeptide binding]; other site 177437001981 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 177437001982 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 177437001983 active site 177437001984 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 177437001985 catalytic triad [active] 177437001986 dimer interface [polypeptide binding]; other site 177437001987 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 177437001988 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 177437001989 homodimer interface [polypeptide binding]; other site 177437001990 substrate-cofactor binding pocket; other site 177437001991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437001992 catalytic residue [active] 177437001993 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 177437001994 Fatty acid desaturase; Region: FA_desaturase; pfam00487 177437001995 putative di-iron ligands [ion binding]; other site 177437001996 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 177437001997 heme-binding residues [chemical binding]; other site 177437001998 Rubrerythrin [Energy production and conversion]; Region: COG1592 177437001999 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 177437002000 binuclear metal center [ion binding]; other site 177437002001 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 177437002002 iron binding site [ion binding]; other site 177437002003 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 177437002004 Uncharacterized conserved protein [Function unknown]; Region: COG0398 177437002005 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 177437002006 mercuric reductase; Validated; Region: PRK06370 177437002007 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437002008 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177437002009 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 177437002010 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 177437002011 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 177437002012 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177437002013 FeS/SAM binding site; other site 177437002014 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 177437002015 spermidine synthase; Provisional; Region: PRK00811 177437002016 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 177437002017 S-adenosylmethionine binding site [chemical binding]; other site 177437002018 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437002019 Coenzyme A binding pocket [chemical binding]; other site 177437002020 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 177437002021 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 177437002022 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 177437002023 substrate binding site [chemical binding]; other site 177437002024 oxyanion hole (OAH) forming residues; other site 177437002025 trimer interface [polypeptide binding]; other site 177437002026 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 177437002027 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437002028 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 177437002029 ligand binding site [chemical binding]; other site 177437002030 flexible hinge region; other site 177437002031 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 177437002032 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 177437002033 putative ligand binding site [chemical binding]; other site 177437002034 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 177437002035 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 177437002036 Walker A/P-loop; other site 177437002037 ATP binding site [chemical binding]; other site 177437002038 Q-loop/lid; other site 177437002039 ABC transporter signature motif; other site 177437002040 Walker B; other site 177437002041 D-loop; other site 177437002042 H-loop/switch region; other site 177437002043 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 177437002044 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437002045 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 177437002046 TM-ABC transporter signature motif; other site 177437002047 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437002048 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 177437002049 TM-ABC transporter signature motif; other site 177437002050 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 177437002051 Ligand Binding Site [chemical binding]; other site 177437002052 EcsC protein family; Region: EcsC; pfam12787 177437002053 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 177437002054 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 177437002055 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 177437002056 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 177437002057 Transposase [DNA replication, recombination, and repair]; Region: COG5421 177437002058 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 177437002059 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 177437002060 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 177437002061 Predicted membrane protein [Function unknown]; Region: COG1238 177437002062 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437002063 AAA domain; Region: AAA_22; pfam13401 177437002064 Integrase core domain; Region: rve; pfam00665 177437002065 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437002066 CHAT domain; Region: CHAT; cl17868 177437002067 CHAT domain; Region: CHAT; pfam12770 177437002068 Putative transposase; Region: Y2_Tnp; pfam04986 177437002069 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 177437002070 Predicted membrane protein [Function unknown]; Region: COG1238 177437002071 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 177437002072 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 177437002073 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 177437002074 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 177437002075 trmE is a tRNA modification GTPase; Region: trmE; cd04164 177437002076 G1 box; other site 177437002077 GTP/Mg2+ binding site [chemical binding]; other site 177437002078 Switch I region; other site 177437002079 G2 box; other site 177437002080 Switch II region; other site 177437002081 G3 box; other site 177437002082 G4 box; other site 177437002083 G5 box; other site 177437002084 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 177437002085 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 177437002086 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 177437002087 G-X-X-G motif; other site 177437002088 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 177437002089 RxxxH motif; other site 177437002090 membrane protein insertase; Provisional; Region: PRK01318 177437002091 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 177437002092 Haemolytic domain; Region: Haemolytic; pfam01809 177437002093 Ribonuclease P; Region: Ribonuclease_P; pfam00825 177437002094 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 177437002095 ribonuclease G; Provisional; Region: PRK11712 177437002096 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 177437002097 homodimer interface [polypeptide binding]; other site 177437002098 oligonucleotide binding site [chemical binding]; other site 177437002099 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 177437002100 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 177437002101 B12 binding site [chemical binding]; other site 177437002102 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 177437002103 FeS/SAM binding site; other site 177437002104 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 177437002105 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 177437002106 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 177437002107 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 177437002108 putative dimer interface [polypeptide binding]; other site 177437002109 putative anticodon binding site; other site 177437002110 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 177437002111 homodimer interface [polypeptide binding]; other site 177437002112 motif 1; other site 177437002113 motif 2; other site 177437002114 active site 177437002115 motif 3; other site 177437002116 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 177437002117 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 177437002118 putative dimer interface [polypeptide binding]; other site 177437002119 active site pocket [active] 177437002120 putative cataytic base [active] 177437002121 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 177437002122 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 177437002123 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 177437002124 CoA binding domain; Region: CoA_binding_2; pfam13380 177437002125 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 177437002126 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 177437002127 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 177437002128 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 177437002129 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 177437002130 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 177437002131 Walker A motif; other site 177437002132 ATP binding site [chemical binding]; other site 177437002133 Walker B motif; other site 177437002134 arginine finger; other site 177437002135 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 177437002136 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437002137 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437002138 putative substrate translocation pore; other site 177437002139 glutamine synthetase, type I; Region: GlnA; TIGR00653 177437002140 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 177437002141 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 177437002142 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 177437002143 Nitrogen regulatory protein P-II; Region: P-II; smart00938 177437002144 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 177437002145 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 177437002146 metal binding triad; other site 177437002147 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 177437002148 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 177437002149 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 177437002150 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 177437002151 twin arginine translocase protein A; Provisional; Region: tatA; PRK14859 177437002152 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177437002153 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 177437002154 Walker A motif; other site 177437002155 ATP binding site [chemical binding]; other site 177437002156 Walker B motif; other site 177437002157 arginine finger; other site 177437002158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 177437002159 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 177437002160 active site 177437002161 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 177437002162 diiron binding motif [ion binding]; other site 177437002163 serine O-acetyltransferase; Region: cysE; TIGR01172 177437002164 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 177437002165 trimer interface [polypeptide binding]; other site 177437002166 active site 177437002167 substrate binding site [chemical binding]; other site 177437002168 CoA binding site [chemical binding]; other site 177437002169 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 177437002170 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 177437002171 dimer interface [polypeptide binding]; other site 177437002172 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437002173 catalytic residue [active] 177437002174 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 177437002175 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 177437002176 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 177437002177 FMN-binding domain; Region: FMN_bind; cl01081 177437002178 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 177437002179 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 177437002180 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 177437002181 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 177437002182 catalytic loop [active] 177437002183 iron binding site [ion binding]; other site 177437002184 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 177437002185 FAD binding pocket [chemical binding]; other site 177437002186 FAD binding motif [chemical binding]; other site 177437002187 phosphate binding motif [ion binding]; other site 177437002188 beta-alpha-beta structure motif; other site 177437002189 NAD binding pocket [chemical binding]; other site 177437002190 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437002191 Zn2+ binding site [ion binding]; other site 177437002192 Mg2+ binding site [ion binding]; other site 177437002193 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 177437002194 catalytic core [active] 177437002195 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 177437002196 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 177437002197 Ligand binding site; other site 177437002198 metal-binding site 177437002199 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 177437002200 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 177437002201 XdhC Rossmann domain; Region: XdhC_C; pfam13478 177437002202 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437002203 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 177437002204 acyl-activating enzyme (AAE) consensus motif; other site 177437002205 active site 177437002206 AMP binding site [chemical binding]; other site 177437002207 CoA binding site [chemical binding]; other site 177437002208 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG1964 177437002209 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 177437002210 FeS/SAM binding site; other site 177437002211 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 177437002212 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 177437002213 S-adenosylmethionine binding site [chemical binding]; other site 177437002214 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437002215 Cysteine-rich domain; Region: CCG; pfam02754 177437002216 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 177437002217 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 177437002218 catalytic loop [active] 177437002219 iron binding site [ion binding]; other site 177437002220 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 177437002221 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 177437002222 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 177437002223 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 177437002224 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 177437002225 putative MPT binding site; other site 177437002226 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437002227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437002228 active site 177437002229 phosphorylation site [posttranslational modification] 177437002230 intermolecular recognition site; other site 177437002231 dimerization interface [polypeptide binding]; other site 177437002232 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 177437002233 Walker A motif; other site 177437002234 ATP binding site [chemical binding]; other site 177437002235 Walker B motif; other site 177437002236 arginine finger; other site 177437002237 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437002238 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 177437002239 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 177437002240 transmembrane helices; other site 177437002241 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177437002242 TrkA-C domain; Region: TrkA_C; pfam02080 177437002243 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177437002244 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 177437002245 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 177437002246 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 177437002247 BON domain; Region: BON; cl02771 177437002248 Response regulator receiver domain; Region: Response_reg; pfam00072 177437002249 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437002250 active site 177437002251 phosphorylation site [posttranslational modification] 177437002252 intermolecular recognition site; other site 177437002253 dimerization interface [polypeptide binding]; other site 177437002254 Response regulator receiver domain; Region: Response_reg; pfam00072 177437002255 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437002256 active site 177437002257 phosphorylation site [posttranslational modification] 177437002258 intermolecular recognition site; other site 177437002259 dimerization interface [polypeptide binding]; other site 177437002260 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177437002261 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 177437002262 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437002263 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 177437002264 dimerization interface [polypeptide binding]; other site 177437002265 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 177437002266 dimer interface [polypeptide binding]; other site 177437002267 phosphorylation site [posttranslational modification] 177437002268 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 177437002269 ATP binding site [chemical binding]; other site 177437002270 Mg2+ binding site [ion binding]; other site 177437002271 G-X-G motif; other site 177437002272 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 177437002273 Sodium Bile acid symporter family; Region: SBF; cl17470 177437002274 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 177437002275 urocanate hydratase; Provisional; Region: PRK05414 177437002276 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 177437002277 CoenzymeA binding site [chemical binding]; other site 177437002278 subunit interaction site [polypeptide binding]; other site 177437002279 PHB binding site; other site 177437002280 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 177437002281 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 177437002282 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 177437002283 non-specific DNA binding site [nucleotide binding]; other site 177437002284 salt bridge; other site 177437002285 sequence-specific DNA binding site [nucleotide binding]; other site 177437002286 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 177437002287 DNA-binding site [nucleotide binding]; DNA binding site 177437002288 RNA-binding motif; other site 177437002289 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 177437002290 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 177437002291 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437002292 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177437002293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437002294 Response regulator receiver domain; Region: Response_reg; pfam00072 177437002295 active site 177437002296 phosphorylation site [posttranslational modification] 177437002297 intermolecular recognition site; other site 177437002298 dimerization interface [polypeptide binding]; other site 177437002299 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 177437002300 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177437002301 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 177437002302 DNA binding residues [nucleotide binding] 177437002303 dimerization interface [polypeptide binding]; other site 177437002304 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 177437002305 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 177437002306 B12 binding site [chemical binding]; other site 177437002307 AAA domain; Region: AAA_22; pfam13401 177437002308 Integrase core domain; Region: rve; pfam00665 177437002309 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437002310 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 177437002311 Flagellin N-methylase; Region: FliB; cl00497 177437002312 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 177437002313 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 177437002314 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 177437002315 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 177437002316 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 177437002317 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437002318 Coenzyme A binding pocket [chemical binding]; other site 177437002319 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 177437002320 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 177437002321 substrate binding pocket [chemical binding]; other site 177437002322 dimer interface [polypeptide binding]; other site 177437002323 inhibitor binding site; inhibition site 177437002324 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 177437002325 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 177437002326 B12 binding site [chemical binding]; other site 177437002327 cobalt ligand [ion binding]; other site 177437002328 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 177437002329 BCCT family transporter; Region: BCCT; pfam02028 177437002330 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 177437002331 PAS domain; Region: PAS_9; pfam13426 177437002332 putative active site [active] 177437002333 heme pocket [chemical binding]; other site 177437002334 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177437002335 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 177437002336 Walker A motif; other site 177437002337 ATP binding site [chemical binding]; other site 177437002338 Walker B motif; other site 177437002339 arginine finger; other site 177437002340 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437002341 BCCT family transporter; Region: BCCT; pfam02028 177437002342 CHAT domain; Region: CHAT; pfam12770 177437002343 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 177437002344 PAS domain; Region: PAS_9; pfam13426 177437002345 putative active site [active] 177437002346 heme pocket [chemical binding]; other site 177437002347 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 177437002348 PAS domain; Region: PAS_9; pfam13426 177437002349 putative active site [active] 177437002350 heme pocket [chemical binding]; other site 177437002351 GAF domain; Region: GAF; pfam01590 177437002352 GAF domain; Region: GAF_2; pfam13185 177437002353 PAS domain S-box; Region: sensory_box; TIGR00229 177437002354 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 177437002355 putative active site [active] 177437002356 heme pocket [chemical binding]; other site 177437002357 CHAT domain; Region: CHAT; cl17868 177437002358 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 177437002359 amidase catalytic site [active] 177437002360 Zn binding residues [ion binding]; other site 177437002361 substrate binding site [chemical binding]; other site 177437002362 Caspase domain; Region: Peptidase_C14; pfam00656 177437002363 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 177437002364 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 177437002365 HflX GTPase family; Region: HflX; cd01878 177437002366 G1 box; other site 177437002367 GTP/Mg2+ binding site [chemical binding]; other site 177437002368 Switch I region; other site 177437002369 G2 box; other site 177437002370 G3 box; other site 177437002371 Switch II region; other site 177437002372 G4 box; other site 177437002373 G5 box; other site 177437002374 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 177437002375 NMT1/THI5 like; Region: NMT1; pfam09084 177437002376 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 177437002377 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 177437002378 dimer interface [polypeptide binding]; other site 177437002379 phosphorylation site [posttranslational modification] 177437002380 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 177437002381 ATP binding site [chemical binding]; other site 177437002382 Mg2+ binding site [ion binding]; other site 177437002383 G-X-G motif; other site 177437002384 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 177437002385 Chorismate mutase type II; Region: CM_2; smart00830 177437002386 prephenate dehydrogenase; Provisional; Region: PRK06444 177437002387 Flagellin N-methylase; Region: FliB; cl00497 177437002388 DJ-1 family protein; Region: not_thiJ; TIGR01383 177437002389 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 177437002390 conserved cys residue [active] 177437002391 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 177437002392 active site 177437002393 intersubunit interface [polypeptide binding]; other site 177437002394 catalytic residue [active] 177437002395 acyl-CoA synthetase; Validated; Region: PRK08316 177437002396 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437002397 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 177437002398 acyl-activating enzyme (AAE) consensus motif; other site 177437002399 acyl-activating enzyme (AAE) consensus motif; other site 177437002400 putative AMP binding site [chemical binding]; other site 177437002401 putative active site [active] 177437002402 putative CoA binding site [chemical binding]; other site 177437002403 Protein of unknown function (DUF503); Region: DUF503; cl00669 177437002404 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 177437002405 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 177437002406 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 177437002407 intersubunit interface [polypeptide binding]; other site 177437002408 Adenosylcobinamide amidohydrolase; Region: CbiZ; pfam01955 177437002409 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 177437002410 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 177437002411 N-terminal plug; other site 177437002412 ligand-binding site [chemical binding]; other site 177437002413 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 177437002414 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 177437002415 active site 177437002416 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 177437002417 active site 177437002418 N-terminal domain interface [polypeptide binding]; other site 177437002419 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 177437002420 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 177437002421 active site 177437002422 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 177437002423 active site 177437002424 N-terminal domain interface [polypeptide binding]; other site 177437002425 aspartate racemase; Region: asp_race; TIGR00035 177437002426 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 177437002427 putative acyltransferase; Provisional; Region: PRK05790 177437002428 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 177437002429 dimer interface [polypeptide binding]; other site 177437002430 active site 177437002431 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 177437002432 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 177437002433 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437002434 active site 177437002435 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 177437002436 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437002437 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437002438 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 177437002439 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 177437002440 hydroxyglutarate oxidase; Provisional; Region: PRK11728 177437002441 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 177437002442 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 177437002443 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 177437002444 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 177437002445 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 177437002446 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 177437002447 Cysteine-rich domain; Region: CCG; pfam02754 177437002448 Cysteine-rich domain; Region: CCG; pfam02754 177437002449 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177437002450 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 177437002451 transmembrane helices; other site 177437002452 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 177437002453 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177437002454 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 177437002455 Ligand Binding Site [chemical binding]; other site 177437002456 FAD dependent oxidoreductase; Region: DAO; pfam01266 177437002457 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437002458 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 177437002459 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 177437002460 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 177437002461 metal binding site [ion binding]; metal-binding site 177437002462 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 177437002463 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177437002464 Cache domain; Region: Cache_1; pfam02743 177437002465 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 177437002466 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437002467 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177437002468 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437002469 dimer interface [polypeptide binding]; other site 177437002470 putative CheW interface [polypeptide binding]; other site 177437002471 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437002472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437002473 active site 177437002474 phosphorylation site [posttranslational modification] 177437002475 intermolecular recognition site; other site 177437002476 dimerization interface [polypeptide binding]; other site 177437002477 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 177437002478 Walker A motif; other site 177437002479 ATP binding site [chemical binding]; other site 177437002480 Walker B motif; other site 177437002481 arginine finger; other site 177437002482 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 177437002483 PAS domain S-box; Region: sensory_box; TIGR00229 177437002484 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 177437002485 putative active site [active] 177437002486 heme pocket [chemical binding]; other site 177437002487 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 177437002488 dimer interface [polypeptide binding]; other site 177437002489 phosphorylation site [posttranslational modification] 177437002490 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 177437002491 ATP binding site [chemical binding]; other site 177437002492 Mg2+ binding site [ion binding]; other site 177437002493 G-X-G motif; other site 177437002494 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437002495 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437002496 active site 177437002497 phosphorylation site [posttranslational modification] 177437002498 intermolecular recognition site; other site 177437002499 dimerization interface [polypeptide binding]; other site 177437002500 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 177437002501 Cation efflux family; Region: Cation_efflux; pfam01545 177437002502 Uncharacterized conserved protein [Function unknown]; Region: COG1433 177437002503 Archaea-specific editing domain of threonyl-tRNA synthetase; Region: tRNA-Thr_ED; pfam08915 177437002504 Protein transporter of the TRAM (translocating chain-associating membrane) superfamily, longevity assurance factor [Intracellular trafficking and secretion]; Region: LAG1; COG5058 177437002505 BCCT family transporter; Region: BCCT; cl00569 177437002506 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 177437002507 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 177437002508 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 177437002509 NMT1-like family; Region: NMT1_2; pfam13379 177437002510 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 177437002511 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 177437002512 dimer interface [polypeptide binding]; other site 177437002513 conserved gate region; other site 177437002514 putative PBP binding loops; other site 177437002515 ABC-ATPase subunit interface; other site 177437002516 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 177437002517 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 177437002518 Walker A/P-loop; other site 177437002519 ATP binding site [chemical binding]; other site 177437002520 Q-loop/lid; other site 177437002521 ABC transporter signature motif; other site 177437002522 Walker B; other site 177437002523 D-loop; other site 177437002524 H-loop/switch region; other site 177437002525 AAA domain; Region: AAA_22; pfam13401 177437002526 Integrase core domain; Region: rve; pfam00665 177437002527 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437002528 Exostosin family; Region: Exostosin; pfam03016 177437002529 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 177437002530 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 177437002531 NAD binding site [chemical binding]; other site 177437002532 putative substrate binding site 2 [chemical binding]; other site 177437002533 putative substrate binding site 1 [chemical binding]; other site 177437002534 active site 177437002535 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 177437002536 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177437002537 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437002538 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177437002539 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437002540 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437002541 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 177437002542 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 177437002543 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 177437002544 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 177437002545 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 177437002546 homodimer interface [polypeptide binding]; other site 177437002547 substrate-cofactor binding pocket; other site 177437002548 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437002549 catalytic residue [active] 177437002550 Glutamine amidotransferase class-I; Region: GATase; pfam00117 177437002551 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 177437002552 glutamine binding [chemical binding]; other site 177437002553 catalytic triad [active] 177437002554 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437002555 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437002556 putative substrate translocation pore; other site 177437002557 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 177437002558 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 177437002559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437002560 homodimer interface [polypeptide binding]; other site 177437002561 catalytic residue [active] 177437002562 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 177437002563 PAS domain S-box; Region: sensory_box; TIGR00229 177437002564 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 177437002565 putative active site [active] 177437002566 heme pocket [chemical binding]; other site 177437002567 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 177437002568 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 177437002569 Predicted permeases [General function prediction only]; Region: RarD; COG2962 177437002570 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 177437002571 FCD domain; Region: FCD; pfam07729 177437002572 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 177437002573 homodimer interface [polypeptide binding]; other site 177437002574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437002575 catalytic residue [active] 177437002576 Transcriptional regulators [Transcription]; Region: FadR; COG2186 177437002577 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437002578 DNA-binding site [nucleotide binding]; DNA binding site 177437002579 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 177437002580 lipoprotein LpqB; Provisional; Region: PRK13616 177437002581 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 177437002582 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 177437002583 C-terminal peptidase (prc); Region: prc; TIGR00225 177437002584 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 177437002585 protein binding site [polypeptide binding]; other site 177437002586 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 177437002587 Catalytic dyad [active] 177437002588 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 177437002589 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 177437002590 Uncharacterized conserved protein [Function unknown]; Region: COG1262 177437002591 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 177437002592 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177437002593 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 177437002594 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177437002595 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 177437002596 Walker A/P-loop; other site 177437002597 ATP binding site [chemical binding]; other site 177437002598 Q-loop/lid; other site 177437002599 ABC transporter signature motif; other site 177437002600 Walker B; other site 177437002601 D-loop; other site 177437002602 H-loop/switch region; other site 177437002603 von Willebrand factor type A domain; Region: VWA_2; pfam13519 177437002604 metal ion-dependent adhesion site (MIDAS); other site 177437002605 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 177437002606 TPR motif; other site 177437002607 binding surface 177437002608 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177437002609 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177437002610 Walker A/P-loop; other site 177437002611 ATP binding site [chemical binding]; other site 177437002612 Q-loop/lid; other site 177437002613 ABC transporter signature motif; other site 177437002614 Walker B; other site 177437002615 D-loop; other site 177437002616 H-loop/switch region; other site 177437002617 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 177437002618 dimer interface [polypeptide binding]; other site 177437002619 conserved gate region; other site 177437002620 putative PBP binding loops; other site 177437002621 ABC-ATPase subunit interface; other site 177437002622 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177437002623 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 177437002624 dimer interface [polypeptide binding]; other site 177437002625 conserved gate region; other site 177437002626 putative PBP binding loops; other site 177437002627 ABC-ATPase subunit interface; other site 177437002628 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437002629 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 177437002630 substrate binding pocket [chemical binding]; other site 177437002631 membrane-bound complex binding site; other site 177437002632 hinge residues; other site 177437002633 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 177437002634 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 177437002635 non-specific DNA binding site [nucleotide binding]; other site 177437002636 salt bridge; other site 177437002637 sequence-specific DNA binding site [nucleotide binding]; other site 177437002638 Cupin domain; Region: Cupin_2; pfam07883 177437002639 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 177437002640 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437002641 Cysteine-rich domain; Region: CCG; pfam02754 177437002642 Cysteine-rich domain; Region: CCG; pfam02754 177437002643 FAD binding domain; Region: FAD_binding_4; pfam01565 177437002644 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 177437002645 DctM-like transporters; Region: DctM; pfam06808 177437002646 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 177437002647 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 177437002648 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437002649 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 177437002650 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 177437002651 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 177437002652 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437002653 putative substrate translocation pore; other site 177437002654 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177437002655 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 177437002656 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 177437002657 active site 177437002658 catalytic tetrad [active] 177437002659 Response regulator receiver domain; Region: Response_reg; pfam00072 177437002660 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437002661 active site 177437002662 phosphorylation site [posttranslational modification] 177437002663 intermolecular recognition site; other site 177437002664 dimerization interface [polypeptide binding]; other site 177437002665 PAS domain; Region: PAS_8; pfam13188 177437002666 PAS domain; Region: PAS_9; pfam13426 177437002667 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 177437002668 dimer interface [polypeptide binding]; other site 177437002669 phosphorylation site [posttranslational modification] 177437002670 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 177437002671 ATP binding site [chemical binding]; other site 177437002672 Mg2+ binding site [ion binding]; other site 177437002673 G-X-G motif; other site 177437002674 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 177437002675 FeS/SAM binding site; other site 177437002676 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177437002677 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 177437002678 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 177437002679 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 177437002680 ligand binding site; other site 177437002681 oligomer interface; other site 177437002682 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 177437002683 dimer interface [polypeptide binding]; other site 177437002684 N-terminal domain interface [polypeptide binding]; other site 177437002685 sulfate 1 binding site; other site 177437002686 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 177437002687 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 177437002688 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 177437002689 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 177437002690 intersubunit interface [polypeptide binding]; other site 177437002691 active site 177437002692 zinc binding site [ion binding]; other site 177437002693 Na+ binding site [ion binding]; other site 177437002694 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 177437002695 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 177437002696 putative substrate binding site [chemical binding]; other site 177437002697 putative ATP binding site [chemical binding]; other site 177437002698 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 177437002699 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 177437002700 NAD(P) binding site [chemical binding]; other site 177437002701 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 177437002702 putative NAD(P) binding site [chemical binding]; other site 177437002703 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 177437002704 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 177437002705 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 177437002706 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 177437002707 active site 177437002708 P-loop; other site 177437002709 phosphorylation site [posttranslational modification] 177437002710 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 177437002711 active site 177437002712 phosphorylation site [posttranslational modification] 177437002713 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 177437002714 dimerization domain swap beta strand [polypeptide binding]; other site 177437002715 regulatory protein interface [polypeptide binding]; other site 177437002716 active site 177437002717 regulatory phosphorylation site [posttranslational modification]; other site 177437002718 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 177437002719 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 177437002720 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 177437002721 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 177437002722 Transcriptional regulators [Transcription]; Region: PurR; COG1609 177437002723 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 177437002724 DNA binding site [nucleotide binding] 177437002725 domain linker motif; other site 177437002726 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177437002727 phosphoglucomutase; Validated; Region: PRK07564 177437002728 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 177437002729 active site 177437002730 substrate binding site [chemical binding]; other site 177437002731 metal binding site [ion binding]; metal-binding site 177437002732 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 177437002733 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 177437002734 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 177437002735 Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]; Region: NifH; COG1348 177437002736 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 177437002737 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 177437002738 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 177437002739 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 177437002740 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; cd00316 177437002741 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 177437002742 methionine sulfoxide reductase B; Provisional; Region: PRK00222 177437002743 SelR domain; Region: SelR; pfam01641 177437002744 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 177437002745 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437002746 acyl-activating enzyme (AAE) consensus motif; other site 177437002747 AMP binding site [chemical binding]; other site 177437002748 active site 177437002749 CoA binding site [chemical binding]; other site 177437002750 PAS domain; Region: PAS_9; pfam13426 177437002751 PAS domain S-box; Region: sensory_box; TIGR00229 177437002752 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 177437002753 putative active site [active] 177437002754 heme pocket [chemical binding]; other site 177437002755 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437002756 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437002757 metal binding site [ion binding]; metal-binding site 177437002758 active site 177437002759 I-site; other site 177437002760 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437002761 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 177437002762 putative ligand binding site [chemical binding]; other site 177437002763 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 177437002764 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 177437002765 folate binding site [chemical binding]; other site 177437002766 NADP+ binding site [chemical binding]; other site 177437002767 RibD C-terminal domain; Region: RibD_C; cl17279 177437002768 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 177437002769 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 177437002770 FAD binding pocket [chemical binding]; other site 177437002771 FAD binding motif [chemical binding]; other site 177437002772 phosphate binding motif [ion binding]; other site 177437002773 beta-alpha-beta structure motif; other site 177437002774 NAD binding pocket [chemical binding]; other site 177437002775 Iron coordination center [ion binding]; other site 177437002776 putative oxidoreductase; Provisional; Region: PRK12831 177437002777 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 177437002778 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437002779 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 177437002780 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 177437002781 Domain of unknown function (DUF3842); Region: DUF3842; pfam12953 177437002782 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 177437002783 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 177437002784 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 177437002785 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 177437002786 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437002787 Coenzyme A binding pocket [chemical binding]; other site 177437002788 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 177437002789 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437002790 acyl-activating enzyme (AAE) consensus motif; other site 177437002791 AMP binding site [chemical binding]; other site 177437002792 active site 177437002793 CoA binding site [chemical binding]; other site 177437002794 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 177437002795 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437002796 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437002797 active site 177437002798 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 177437002799 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437002800 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437002801 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 177437002802 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 177437002803 FMN binding site [chemical binding]; other site 177437002804 active site 177437002805 catalytic residues [active] 177437002806 substrate binding site [chemical binding]; other site 177437002807 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 177437002808 SPFH domain / Band 7 family; Region: Band_7; pfam01145 177437002809 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177437002810 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 177437002811 Walker A motif; other site 177437002812 ATP binding site [chemical binding]; other site 177437002813 Walker B motif; other site 177437002814 arginine finger; other site 177437002815 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 177437002816 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 177437002817 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 177437002818 Secretory lipase; Region: LIP; pfam03583 177437002819 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 177437002820 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 177437002821 N-terminal plug; other site 177437002822 ligand-binding site [chemical binding]; other site 177437002823 YcaO-like family; Region: YcaO; pfam02624 177437002824 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 177437002825 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437002826 putative substrate translocation pore; other site 177437002827 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437002828 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 177437002829 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 177437002830 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 177437002831 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 177437002832 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 177437002833 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 177437002834 Strictosidine synthase; Region: Str_synth; pfam03088 177437002835 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 177437002836 Eukaryotic phosphomannomutase; Region: PMM; cl17107 177437002837 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 177437002838 motif II; other site 177437002839 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 177437002840 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 177437002841 FMN binding site [chemical binding]; other site 177437002842 active site 177437002843 catalytic residues [active] 177437002844 substrate binding site [chemical binding]; other site 177437002845 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 177437002846 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 177437002847 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177437002848 catalytic residue [active] 177437002849 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 177437002850 RNase_H superfamily; Region: RNase_H_2; pfam13482 177437002851 active site 177437002852 substrate binding site [chemical binding]; other site 177437002853 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 177437002854 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177437002855 transcription termination factor Rho; Provisional; Region: PRK12608 177437002856 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 177437002857 RNA binding site [nucleotide binding]; other site 177437002858 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 177437002859 Walker A motif; other site 177437002860 ATP binding site [chemical binding]; other site 177437002861 Walker B motif; other site 177437002862 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 177437002863 C-N hydrolase family amidase; Provisional; Region: PRK10438 177437002864 putative active site [active] 177437002865 catalytic triad [active] 177437002866 dimer interface [polypeptide binding]; other site 177437002867 multimer interface [polypeptide binding]; other site 177437002868 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 177437002869 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177437002870 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 177437002871 dimerization interface [polypeptide binding]; other site 177437002872 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 177437002873 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 177437002874 BCCT family transporter; Region: BCCT; pfam02028 177437002875 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 177437002876 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 177437002877 dimerization interface [polypeptide binding]; other site 177437002878 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177437002879 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437002880 dimer interface [polypeptide binding]; other site 177437002881 putative CheW interface [polypeptide binding]; other site 177437002882 GTP-binding protein YchF; Reviewed; Region: PRK09601 177437002883 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 177437002884 G1 box; other site 177437002885 GTP/Mg2+ binding site [chemical binding]; other site 177437002886 G2 box; other site 177437002887 Switch I region; other site 177437002888 G3 box; other site 177437002889 Switch II region; other site 177437002890 G4 box; other site 177437002891 G5 box; other site 177437002892 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 177437002893 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437002894 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 177437002895 NAD(P) binding site [chemical binding]; other site 177437002896 active site 177437002897 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 177437002898 Mo25-like; Region: Mo25; pfam08569 177437002899 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 177437002900 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 177437002901 MPT binding site; other site 177437002902 trimer interface [polypeptide binding]; other site 177437002903 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 177437002904 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177437002905 active site 177437002906 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 177437002907 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 177437002908 GTP binding site; other site 177437002909 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional; Region: PRK14493 177437002910 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 177437002911 trimer interface [polypeptide binding]; other site 177437002912 dimer interface [polypeptide binding]; other site 177437002913 putative active site [active] 177437002914 RmuC family; Region: RmuC; pfam02646 177437002915 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 177437002916 MltA specific insert domain; Region: MltA; smart00925 177437002917 3D domain; Region: 3D; pfam06725 177437002918 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 177437002919 Short C-terminal domain; Region: SHOCT; pfam09851 177437002920 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 177437002921 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 177437002922 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177437002923 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 177437002924 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 177437002925 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 177437002926 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 177437002927 AIR carboxylase; Region: AIRC; pfam00731 177437002928 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 177437002929 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 177437002930 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 177437002931 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 177437002932 Transposase [DNA replication, recombination, and repair]; Region: COG5421 177437002933 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 177437002934 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 177437002935 non-specific DNA binding site [nucleotide binding]; other site 177437002936 salt bridge; other site 177437002937 sequence-specific DNA binding site [nucleotide binding]; other site 177437002938 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 177437002939 Fic family protein [Function unknown]; Region: COG3177 177437002940 Fic/DOC family; Region: Fic; pfam02661 177437002941 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 177437002942 Fic/DOC family; Region: Fic; pfam02661 177437002943 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 177437002944 AAA domain; Region: AAA_22; pfam13401 177437002945 Integrase core domain; Region: rve; pfam00665 177437002946 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437002947 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 177437002948 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 177437002949 Sulfatase; Region: Sulfatase; pfam00884 177437002950 Scramblase; Region: Scramblase; pfam03803 177437002951 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 177437002952 4Fe-4S binding domain; Region: Fer4_5; pfam12801 177437002953 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 177437002954 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 177437002955 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 177437002956 active site 177437002957 motif I; other site 177437002958 motif II; other site 177437002959 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 177437002960 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 177437002961 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 177437002962 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 177437002963 Walker A motif; other site 177437002964 ATP binding site [chemical binding]; other site 177437002965 Walker B motif; other site 177437002966 arginine finger; other site 177437002967 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 177437002968 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 177437002969 MarR family; Region: MarR; pfam01047 177437002970 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177437002971 EamA-like transporter family; Region: EamA; pfam00892 177437002972 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 177437002973 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 177437002974 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 177437002975 active site 177437002976 metal binding site [ion binding]; metal-binding site 177437002977 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 177437002978 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177437002979 EamA-like transporter family; Region: EamA; pfam00892 177437002980 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 177437002981 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 177437002982 Nucleotide-binding sites [chemical binding]; other site 177437002983 Walker A motif; other site 177437002984 Switch I region of nucleotide binding site; other site 177437002985 Fe4S4 binding sites [ion binding]; other site 177437002986 Switch II region of nucleotide binding site; other site 177437002987 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 177437002988 Nitrogen regulatory protein P-II; Region: P-II; smart00938 177437002989 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 177437002990 Nitrogen regulatory protein P-II; Region: P-II; smart00938 177437002991 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 177437002992 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 177437002993 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 177437002994 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 177437002995 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 177437002996 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 177437002997 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 177437002998 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 177437002999 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 177437003000 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 177437003001 FeS/SAM binding site; other site 177437003002 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. This...; Region: NifX_NifB; cl00252 177437003003 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 177437003004 dimer interface [polypeptide binding]; other site 177437003005 [2Fe-2S] cluster binding site [ion binding]; other site 177437003006 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 177437003007 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 177437003008 active site 177437003009 catalytic residues [active] 177437003010 metal binding site [ion binding]; metal-binding site 177437003011 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 177437003012 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 177437003013 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 177437003014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177437003015 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 177437003016 putative dimerization interface [polypeptide binding]; other site 177437003017 Lysine efflux permease [General function prediction only]; Region: COG1279 177437003018 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 177437003019 ADP-glucose phosphorylase; Region: PLN02643 177437003020 nucleotide binding site/active site [active] 177437003021 HIT family signature motif; other site 177437003022 catalytic residue [active] 177437003023 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 177437003024 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 177437003025 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 177437003026 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 177437003027 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 177437003028 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 177437003029 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 177437003030 dimer interface [polypeptide binding]; other site 177437003031 conserved gate region; other site 177437003032 putative PBP binding loops; other site 177437003033 ABC-ATPase subunit interface; other site 177437003034 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 177437003035 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437003036 Walker A/P-loop; other site 177437003037 ATP binding site [chemical binding]; other site 177437003038 Q-loop/lid; other site 177437003039 ABC transporter signature motif; other site 177437003040 Walker B; other site 177437003041 D-loop; other site 177437003042 H-loop/switch region; other site 177437003043 TOBE domain; Region: TOBE; cl01440 177437003044 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 177437003045 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437003046 Coenzyme A binding pocket [chemical binding]; other site 177437003047 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 177437003048 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437003049 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177437003050 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 177437003051 PAS domain; Region: PAS_9; pfam13426 177437003052 putative active site [active] 177437003053 heme pocket [chemical binding]; other site 177437003054 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177437003055 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 177437003056 Walker A motif; other site 177437003057 ATP binding site [chemical binding]; other site 177437003058 Walker B motif; other site 177437003059 arginine finger; other site 177437003060 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437003061 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 177437003062 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 177437003063 PAS fold; Region: PAS_4; pfam08448 177437003064 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 177437003065 putative active site [active] 177437003066 heme pocket [chemical binding]; other site 177437003067 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 177437003068 enoyl-CoA hydratase; Validated; Region: PRK08139 177437003069 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 177437003070 substrate binding site [chemical binding]; other site 177437003071 oxyanion hole (OAH) forming residues; other site 177437003072 trimer interface [polypeptide binding]; other site 177437003073 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 177437003074 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 177437003075 acyl-activating enzyme (AAE) consensus motif; other site 177437003076 putative AMP binding site [chemical binding]; other site 177437003077 putative active site [active] 177437003078 putative CoA binding site [chemical binding]; other site 177437003079 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 177437003080 non-specific DNA binding site [nucleotide binding]; other site 177437003081 salt bridge; other site 177437003082 sequence-specific DNA binding site [nucleotide binding]; other site 177437003083 Cupin domain; Region: Cupin_2; pfam07883 177437003084 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 177437003085 active site 177437003086 catalytic residues [active] 177437003087 metal binding site [ion binding]; metal-binding site 177437003088 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 177437003089 enoyl-CoA hydratase; Provisional; Region: PRK07657 177437003090 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 177437003091 substrate binding site [chemical binding]; other site 177437003092 oxyanion hole (OAH) forming residues; other site 177437003093 trimer interface [polypeptide binding]; other site 177437003094 AMP-binding domain protein; Validated; Region: PRK08315 177437003095 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437003096 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 177437003097 acyl-activating enzyme (AAE) consensus motif; other site 177437003098 putative AMP binding site [chemical binding]; other site 177437003099 putative active site [active] 177437003100 putative CoA binding site [chemical binding]; other site 177437003101 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437003102 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437003103 active site 177437003104 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437003105 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437003106 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 177437003107 B12 binding site [chemical binding]; other site 177437003108 cobalt ligand [ion binding]; other site 177437003109 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 177437003110 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 177437003111 putative acyltransferase; Provisional; Region: PRK05790 177437003112 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 177437003113 dimer interface [polypeptide binding]; other site 177437003114 active site 177437003115 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 177437003116 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 177437003117 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 177437003118 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 177437003119 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 177437003120 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 177437003121 active site 177437003122 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437003123 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437003124 putative substrate translocation pore; other site 177437003125 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 177437003126 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 177437003127 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 177437003128 FMN binding site [chemical binding]; other site 177437003129 active site 177437003130 substrate binding site [chemical binding]; other site 177437003131 catalytic residue [active] 177437003132 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 177437003133 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 177437003134 Prostaglandin dehydrogenases; Region: PGDH; cd05288 177437003135 NAD(P) binding site [chemical binding]; other site 177437003136 substrate binding site [chemical binding]; other site 177437003137 dimer interface [polypeptide binding]; other site 177437003138 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 177437003139 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 177437003140 dimer interface [polypeptide binding]; other site 177437003141 active site 177437003142 metal binding site [ion binding]; metal-binding site 177437003143 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437003144 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437003145 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 177437003146 catalytic residues [active] 177437003147 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 177437003148 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 177437003149 active site 177437003150 metal binding site [ion binding]; metal-binding site 177437003151 Diadenosine tetraphosphatase and related serine/threonine protein phosphatases [Signal transduction mechanisms]; Region: ApaH; COG0639 177437003152 Catalytic domain of Protein Kinases; Region: PKc; cd00180 177437003153 active site 177437003154 ATP binding site [chemical binding]; other site 177437003155 substrate binding site [chemical binding]; other site 177437003156 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 177437003157 activation loop (A-loop); other site 177437003158 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 177437003159 ribosome small subunit-dependent GTPase A; Region: TIGR00157 177437003160 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 177437003161 GTPase/Zn-binding domain interface [polypeptide binding]; other site 177437003162 GTP/Mg2+ binding site [chemical binding]; other site 177437003163 G4 box; other site 177437003164 G5 box; other site 177437003165 G1 box; other site 177437003166 Switch I region; other site 177437003167 G2 box; other site 177437003168 G3 box; other site 177437003169 Switch II region; other site 177437003170 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 177437003171 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 177437003172 dimer interface [polypeptide binding]; other site 177437003173 active site 177437003174 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177437003175 catalytic residues [active] 177437003176 substrate binding site [chemical binding]; other site 177437003177 Cache domain; Region: Cache_1; pfam02743 177437003178 HAMP domain; Region: HAMP; pfam00672 177437003179 dimerization interface [polypeptide binding]; other site 177437003180 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177437003181 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437003182 dimer interface [polypeptide binding]; other site 177437003183 putative CheW interface [polypeptide binding]; other site 177437003184 Predicted permeases [General function prediction only]; Region: COG0679 177437003185 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 177437003186 Ligand Binding Site [chemical binding]; other site 177437003187 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 177437003188 Ligand Binding Site [chemical binding]; other site 177437003189 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 177437003190 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 177437003191 oligomer interface [polypeptide binding]; other site 177437003192 metal binding site [ion binding]; metal-binding site 177437003193 metal binding site [ion binding]; metal-binding site 177437003194 Cl binding site [ion binding]; other site 177437003195 aspartate ring; other site 177437003196 basic sphincter; other site 177437003197 putative hydrophobic gate; other site 177437003198 periplasmic entrance; other site 177437003199 Amino acid permease; Region: AA_permease; pfam00324 177437003200 Integral membrane protein TerC family; Region: TerC; cl10468 177437003201 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 177437003202 HSP70 interaction site [polypeptide binding]; other site 177437003203 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 177437003204 dimer interface [polypeptide binding]; other site 177437003205 catalytic triad [active] 177437003206 peroxidatic and resolving cysteines [active] 177437003207 fumarate hydratase; Reviewed; Region: fumC; PRK00485 177437003208 aspartase (L-aspartate ammonia-lyase) and fumarase class II enzymes; Region: Aspartase_like; cd01596 177437003209 active sites [active] 177437003210 tetramer interface [polypeptide binding]; other site 177437003211 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 177437003212 dimer interface [polypeptide binding]; other site 177437003213 FMN binding site [chemical binding]; other site 177437003214 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 177437003215 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 177437003216 Zn binding site [ion binding]; other site 177437003217 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 177437003218 dimerization interface [polypeptide binding]; other site 177437003219 substrate binding site [chemical binding]; other site 177437003220 active site 177437003221 calcium binding site [ion binding]; other site 177437003222 Uncharacterized conserved protein [Function unknown]; Region: COG2353 177437003223 Ion channel; Region: Ion_trans_2; pfam07885 177437003224 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 177437003225 Phytochelatin synthase; Region: Phytochelatin; pfam05023 177437003226 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 177437003227 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 177437003228 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 177437003229 active site 177437003230 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 177437003231 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 177437003232 dimerization interface [polypeptide binding]; other site 177437003233 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 177437003234 dimer interface [polypeptide binding]; other site 177437003235 phosphorylation site [posttranslational modification] 177437003236 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 177437003237 ATP binding site [chemical binding]; other site 177437003238 Mg2+ binding site [ion binding]; other site 177437003239 G-X-G motif; other site 177437003240 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 177437003241 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437003242 active site 177437003243 phosphorylation site [posttranslational modification] 177437003244 intermolecular recognition site; other site 177437003245 dimerization interface [polypeptide binding]; other site 177437003246 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 177437003247 DNA binding site [nucleotide binding] 177437003248 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 177437003249 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 177437003250 Sulfatase; Region: Sulfatase; pfam00884 177437003251 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 177437003252 active site 177437003253 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 177437003254 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177437003255 Walker A motif; other site 177437003256 ATP binding site [chemical binding]; other site 177437003257 Walker B motif; other site 177437003258 arginine finger; other site 177437003259 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437003260 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 177437003261 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 177437003262 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 177437003263 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 177437003264 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177437003265 catalytic residue [active] 177437003266 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 177437003267 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 177437003268 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 177437003269 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 177437003270 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 177437003271 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 177437003272 Amino acid permease; Region: AA_permease; pfam00324 177437003273 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 177437003274 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 177437003275 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; cd02619 177437003276 active site 177437003277 aconitate hydratase; Validated; Region: PRK09277 177437003278 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 177437003279 substrate binding site [chemical binding]; other site 177437003280 ligand binding site [chemical binding]; other site 177437003281 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 177437003282 substrate binding site [chemical binding]; other site 177437003283 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 177437003284 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 177437003285 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177437003286 catalytic residue [active] 177437003287 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 177437003288 active site residue [active] 177437003289 Uncharacterized conserved protein [Function unknown]; Region: COG1633 177437003290 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 177437003291 diiron binding motif [ion binding]; other site 177437003292 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 177437003293 putative acyl-acceptor binding pocket; other site 177437003294 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 177437003295 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 177437003296 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 177437003297 translation initiation factor Sui1; Validated; Region: PRK06824 177437003298 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 177437003299 putative rRNA binding site [nucleotide binding]; other site 177437003300 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 177437003301 Ferredoxin [Energy production and conversion]; Region: COG1146 177437003302 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437003303 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 177437003304 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 177437003305 dimer interface [polypeptide binding]; other site 177437003306 PYR/PP interface [polypeptide binding]; other site 177437003307 TPP binding site [chemical binding]; other site 177437003308 substrate binding site [chemical binding]; other site 177437003309 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177437003310 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 177437003311 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 177437003312 TPP-binding site [chemical binding]; other site 177437003313 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 177437003314 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 177437003315 ACT domain-containing protein [General function prediction only]; Region: COG4747 177437003316 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 177437003317 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437003318 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 177437003319 FAD binding site [chemical binding]; other site 177437003320 homotetramer interface [polypeptide binding]; other site 177437003321 substrate binding pocket [chemical binding]; other site 177437003322 catalytic base [active] 177437003323 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 177437003324 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 177437003325 non-specific DNA binding site [nucleotide binding]; other site 177437003326 salt bridge; other site 177437003327 sequence-specific DNA binding site [nucleotide binding]; other site 177437003328 Cupin domain; Region: Cupin_2; pfam07883 177437003329 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 177437003330 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 177437003331 homodimer interface [polypeptide binding]; other site 177437003332 substrate-cofactor binding pocket; other site 177437003333 catalytic residue [active] 177437003334 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 177437003335 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 177437003336 active site 177437003337 GTPase Era; Reviewed; Region: era; PRK00089 177437003338 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 177437003339 G1 box; other site 177437003340 GTP/Mg2+ binding site [chemical binding]; other site 177437003341 Switch I region; other site 177437003342 G2 box; other site 177437003343 Switch II region; other site 177437003344 G3 box; other site 177437003345 G4 box; other site 177437003346 G5 box; other site 177437003347 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 177437003348 G1 box; other site 177437003349 GTP/Mg2+ binding site [chemical binding]; other site 177437003350 Switch I region; other site 177437003351 G2 box; other site 177437003352 G3 box; other site 177437003353 Switch II region; other site 177437003354 G4 box; other site 177437003355 G5 box; other site 177437003356 aspartate aminotransferase; Provisional; Region: PRK05764 177437003357 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 177437003358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437003359 homodimer interface [polypeptide binding]; other site 177437003360 catalytic residue [active] 177437003361 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 177437003362 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 177437003363 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 177437003364 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 177437003365 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 177437003366 Transglycosylase; Region: Transgly; pfam00912 177437003367 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 177437003368 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 177437003369 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 177437003370 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 177437003371 FeS/SAM binding site; other site 177437003372 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 177437003373 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 177437003374 active site 177437003375 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 177437003376 ribonuclease III; Reviewed; Region: rnc; PRK00102 177437003377 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 177437003378 dimerization interface [polypeptide binding]; other site 177437003379 active site 177437003380 metal binding site [ion binding]; metal-binding site 177437003381 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 177437003382 dsRNA binding site [nucleotide binding]; other site 177437003383 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 177437003384 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 177437003385 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 177437003386 tRNA; other site 177437003387 putative tRNA binding site [nucleotide binding]; other site 177437003388 putative NADP binding site [chemical binding]; other site 177437003389 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 177437003390 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 177437003391 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 177437003392 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 177437003393 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 177437003394 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 177437003395 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 177437003396 FMN binding site [chemical binding]; other site 177437003397 active site 177437003398 catalytic residues [active] 177437003399 substrate binding site [chemical binding]; other site 177437003400 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 177437003401 metal binding site 2 [ion binding]; metal-binding site 177437003402 putative DNA binding helix; other site 177437003403 metal binding site 1 [ion binding]; metal-binding site 177437003404 dimer interface [polypeptide binding]; other site 177437003405 structural Zn2+ binding site [ion binding]; other site 177437003406 FeoA domain; Region: FeoA; pfam04023 177437003407 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 177437003408 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 177437003409 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 177437003410 G1 box; other site 177437003411 GTP/Mg2+ binding site [chemical binding]; other site 177437003412 Switch I region; other site 177437003413 G2 box; other site 177437003414 G3 box; other site 177437003415 Switch II region; other site 177437003416 G4 box; other site 177437003417 G5 box; other site 177437003418 Nucleoside recognition; Region: Gate; pfam07670 177437003419 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 177437003420 Nucleoside recognition; Region: Gate; pfam07670 177437003421 Bacterial SH3 domain; Region: SH3_4; pfam06347 177437003422 Bacterial SH3 domain; Region: SH3_4; pfam06347 177437003423 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 177437003424 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437003425 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437003426 active site 177437003427 phosphorylation site [posttranslational modification] 177437003428 intermolecular recognition site; other site 177437003429 dimerization interface [polypeptide binding]; other site 177437003430 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 177437003431 Walker A motif; other site 177437003432 ATP binding site [chemical binding]; other site 177437003433 Walker B motif; other site 177437003434 arginine finger; other site 177437003435 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437003436 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 177437003437 dimer interface [polypeptide binding]; other site 177437003438 phosphorylation site [posttranslational modification] 177437003439 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 177437003440 ATP binding site [chemical binding]; other site 177437003441 Mg2+ binding site [ion binding]; other site 177437003442 G-X-G motif; other site 177437003443 Cell division protein FtsA; Region: FtsA; cl17206 177437003444 Competence protein A; Region: Competence_A; pfam11104 177437003445 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 177437003446 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 177437003447 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 177437003448 Pilus assembly protein, PilO; Region: PilO; pfam04350 177437003449 Pilus assembly protein, PilP; Region: PilP; pfam04351 177437003450 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 177437003451 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 177437003452 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 177437003453 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 177437003454 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 177437003455 binding surface 177437003456 TPR motif; other site 177437003457 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 177437003458 binding surface 177437003459 TPR motif; other site 177437003460 threonine synthase; Validated; Region: PRK06260 177437003461 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 177437003462 homodimer interface [polypeptide binding]; other site 177437003463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437003464 catalytic residue [active] 177437003465 seryl-tRNA synthetase; Provisional; Region: PRK05431 177437003466 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 177437003467 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 177437003468 dimer interface [polypeptide binding]; other site 177437003469 active site 177437003470 motif 1; other site 177437003471 motif 2; other site 177437003472 motif 3; other site 177437003473 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 177437003474 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 177437003475 Ion channel; Region: Ion_trans_2; pfam07885 177437003476 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 177437003477 TrkA-N domain; Region: TrkA_N; pfam02254 177437003478 TrkA-C domain; Region: TrkA_C; pfam02080 177437003479 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 177437003480 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 177437003481 S-adenosylmethionine binding site [chemical binding]; other site 177437003482 Predicted membrane protein [Function unknown]; Region: COG1238 177437003483 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 177437003484 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177437003485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177437003486 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 177437003487 putative dimerization interface [polypeptide binding]; other site 177437003488 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 177437003489 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 177437003490 active site 177437003491 (T/H)XGH motif; other site 177437003492 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 177437003493 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 177437003494 S-adenosylmethionine binding site [chemical binding]; other site 177437003495 Response regulator receiver domain; Region: Response_reg; pfam00072 177437003496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437003497 active site 177437003498 phosphorylation site [posttranslational modification] 177437003499 intermolecular recognition site; other site 177437003500 dimerization interface [polypeptide binding]; other site 177437003501 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 177437003502 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177437003503 Walker A motif; other site 177437003504 ATP binding site [chemical binding]; other site 177437003505 Walker B motif; other site 177437003506 arginine finger; other site 177437003507 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 177437003508 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 177437003509 dimerization interface [polypeptide binding]; other site 177437003510 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 177437003511 putative active site [active] 177437003512 heme pocket [chemical binding]; other site 177437003513 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 177437003514 dimer interface [polypeptide binding]; other site 177437003515 phosphorylation site [posttranslational modification] 177437003516 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 177437003517 ATP binding site [chemical binding]; other site 177437003518 Mg2+ binding site [ion binding]; other site 177437003519 G-X-G motif; other site 177437003520 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 177437003521 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 177437003522 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 177437003523 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 177437003524 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 177437003525 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 177437003526 Walker A motif; other site 177437003527 ATP binding site [chemical binding]; other site 177437003528 Walker B motif; other site 177437003529 arginine finger; other site 177437003530 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 177437003531 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 177437003532 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 177437003533 dimerization interface [polypeptide binding]; other site 177437003534 domain crossover interface; other site 177437003535 redox-dependent activation switch; other site 177437003536 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 177437003537 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 177437003538 dimer interface [polypeptide binding]; other site 177437003539 PYR/PP interface [polypeptide binding]; other site 177437003540 TPP binding site [chemical binding]; other site 177437003541 substrate binding site [chemical binding]; other site 177437003542 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 177437003543 TPP-binding site; other site 177437003544 4Fe-4S binding domain; Region: Fer4; pfam00037 177437003545 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 177437003546 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 177437003547 type II secretion system protein F; Region: GspF; TIGR02120 177437003548 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 177437003549 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 177437003550 Uncharacterized conserved protein [Function unknown]; Region: COG4279 177437003551 SNF2 Helicase protein; Region: DUF3670; pfam12419 177437003552 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 177437003553 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 177437003554 ATP binding site [chemical binding]; other site 177437003555 putative Mg++ binding site [ion binding]; other site 177437003556 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 177437003557 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 177437003558 nucleotide binding region [chemical binding]; other site 177437003559 ATP-binding site [chemical binding]; other site 177437003560 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 177437003561 binding surface 177437003562 TPR motif; other site 177437003563 Haemolytic domain; Region: Haemolytic; pfam01809 177437003564 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 177437003565 type II secretion system protein E; Region: type_II_gspE; TIGR02533 177437003566 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 177437003567 Walker A motif; other site 177437003568 ATP binding site [chemical binding]; other site 177437003569 Walker B motif; other site 177437003570 type II secretion system protein D; Region: type_II_gspD; TIGR02517 177437003571 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 177437003572 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 177437003573 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 177437003574 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 177437003575 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 177437003576 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 177437003577 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 177437003578 protein binding site [polypeptide binding]; other site 177437003579 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 177437003580 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 177437003581 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 177437003582 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 177437003583 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 177437003584 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 177437003585 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 177437003586 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 177437003587 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 177437003588 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 177437003589 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 177437003590 Bacterial SH3 domain; Region: SH3_3; pfam08239 177437003591 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 177437003592 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 177437003593 S-adenosylmethionine binding site [chemical binding]; other site 177437003594 chaperone protein DnaJ; Provisional; Region: PRK14294 177437003595 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 177437003596 HSP70 interaction site [polypeptide binding]; other site 177437003597 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 177437003598 substrate binding site [polypeptide binding]; other site 177437003599 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 177437003600 Zn binding sites [ion binding]; other site 177437003601 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 177437003602 dimer interface [polypeptide binding]; other site 177437003603 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 177437003604 active site 177437003605 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177437003606 active site 177437003607 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 177437003608 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177437003609 Walker A/P-loop; other site 177437003610 ATP binding site [chemical binding]; other site 177437003611 Q-loop/lid; other site 177437003612 ABC transporter signature motif; other site 177437003613 Walker B; other site 177437003614 D-loop; other site 177437003615 H-loop/switch region; other site 177437003616 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 177437003617 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 177437003618 Peptidase family M23; Region: Peptidase_M23; pfam01551 177437003619 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 177437003620 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 177437003621 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 177437003622 protein binding site [polypeptide binding]; other site 177437003623 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 177437003624 Catalytic dyad [active] 177437003625 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 177437003626 putative active site [active] 177437003627 NodB motif; other site 177437003628 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 177437003629 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 177437003630 S-adenosylmethionine binding site [chemical binding]; other site 177437003631 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 177437003632 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 177437003633 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 177437003634 Nucleoside recognition; Region: Gate; pfam07670 177437003635 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 177437003636 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 177437003637 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177437003638 FeS/SAM binding site; other site 177437003639 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 177437003640 HupF/HypC family; Region: HupF_HypC; pfam01455 177437003641 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 177437003642 Acylphosphatase; Region: Acylphosphatase; cl00551 177437003643 HypF finger; Region: zf-HYPF; pfam07503 177437003644 HypF finger; Region: zf-HYPF; pfam07503 177437003645 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 177437003646 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 177437003647 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 177437003648 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 177437003649 dimerization interface [polypeptide binding]; other site 177437003650 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 177437003651 ATP binding site [chemical binding]; other site 177437003652 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 177437003653 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 177437003654 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 177437003655 NAD(P) binding site [chemical binding]; other site 177437003656 catalytic residues [active] 177437003657 thioredoxin 2; Provisional; Region: PRK10996 177437003658 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 177437003659 catalytic residues [active] 177437003660 Uncharacterized conserved protein [Function unknown]; Region: COG1284 177437003661 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 177437003662 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 177437003663 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 177437003664 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 177437003665 putative substrate-binding site; other site 177437003666 nickel binding site [ion binding]; other site 177437003667 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 177437003668 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 177437003669 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 177437003670 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 177437003671 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 177437003672 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 177437003673 nickel binding site [ion binding]; other site 177437003674 4Fe-4S binding domain; Region: Fer4; pfam00037 177437003675 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 177437003676 4Fe-4S binding domain; Region: Fer4; pfam00037 177437003677 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 177437003678 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437003679 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437003680 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 177437003681 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 177437003682 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 177437003683 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 177437003684 PAS fold; Region: PAS_4; pfam08448 177437003685 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437003686 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437003687 metal binding site [ion binding]; metal-binding site 177437003688 active site 177437003689 I-site; other site 177437003690 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 177437003691 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 177437003692 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437003693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437003694 active site 177437003695 phosphorylation site [posttranslational modification] 177437003696 intermolecular recognition site; other site 177437003697 dimerization interface [polypeptide binding]; other site 177437003698 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 177437003699 Walker A motif; other site 177437003700 ATP binding site [chemical binding]; other site 177437003701 Walker B motif; other site 177437003702 arginine finger; other site 177437003703 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 177437003704 Response regulator receiver domain; Region: Response_reg; pfam00072 177437003705 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437003706 active site 177437003707 phosphorylation site [posttranslational modification] 177437003708 intermolecular recognition site; other site 177437003709 dimerization interface [polypeptide binding]; other site 177437003710 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177437003711 GAF domain; Region: GAF_3; pfam13492 177437003712 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 177437003713 dimer interface [polypeptide binding]; other site 177437003714 phosphorylation site [posttranslational modification] 177437003715 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 177437003716 ATP binding site [chemical binding]; other site 177437003717 Mg2+ binding site [ion binding]; other site 177437003718 G-X-G motif; other site 177437003719 Response regulator receiver domain; Region: Response_reg; pfam00072 177437003720 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437003721 active site 177437003722 phosphorylation site [posttranslational modification] 177437003723 intermolecular recognition site; other site 177437003724 dimerization interface [polypeptide binding]; other site 177437003725 4Fe-4S binding domain; Region: Fer4; pfam00037 177437003726 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437003727 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437003728 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437003729 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 177437003730 4Fe-4S binding domain; Region: Fer4; pfam00037 177437003731 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437003732 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 177437003733 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 177437003734 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 177437003735 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 177437003736 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 177437003737 [4Fe-4S] binding site [ion binding]; other site 177437003738 molybdopterin cofactor binding site; other site 177437003739 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 177437003740 molybdopterin cofactor binding site; other site 177437003741 HDOD domain; Region: HDOD; pfam08668 177437003742 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 177437003743 GAF domain; Region: GAF; cl17456 177437003744 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 177437003745 cyclase homology domain; Region: CHD; cd07302 177437003746 nucleotidyl binding site; other site 177437003747 metal binding site [ion binding]; metal-binding site 177437003748 dimer interface [polypeptide binding]; other site 177437003749 HDOD domain; Region: HDOD; pfam08668 177437003750 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 177437003751 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 177437003752 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437003753 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 177437003754 acyl-activating enzyme (AAE) consensus motif; other site 177437003755 AMP binding site [chemical binding]; other site 177437003756 active site 177437003757 CoA binding site [chemical binding]; other site 177437003758 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 177437003759 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 177437003760 non-specific DNA binding site [nucleotide binding]; other site 177437003761 salt bridge; other site 177437003762 sequence-specific DNA binding site [nucleotide binding]; other site 177437003763 Cupin domain; Region: Cupin_2; pfam07883 177437003764 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 177437003765 active site 177437003766 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 177437003767 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 177437003768 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 177437003769 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 177437003770 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 177437003771 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 177437003772 active site 177437003773 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 177437003774 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 177437003775 dimerization interface [polypeptide binding]; other site 177437003776 putative DNA binding site [nucleotide binding]; other site 177437003777 putative Zn2+ binding site [ion binding]; other site 177437003778 AsnC family; Region: AsnC_trans_reg; pfam01037 177437003779 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 177437003780 amidase catalytic site [active] 177437003781 Zn binding residues [ion binding]; other site 177437003782 substrate binding site [chemical binding]; other site 177437003783 PilZ domain; Region: PilZ; pfam07238 177437003784 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177437003785 EamA-like transporter family; Region: EamA; pfam00892 177437003786 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437003787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437003788 active site 177437003789 phosphorylation site [posttranslational modification] 177437003790 intermolecular recognition site; other site 177437003791 dimerization interface [polypeptide binding]; other site 177437003792 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 177437003793 Walker A motif; other site 177437003794 ATP binding site [chemical binding]; other site 177437003795 Walker B motif; other site 177437003796 arginine finger; other site 177437003797 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 177437003798 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 177437003799 putative active site [active] 177437003800 heme pocket [chemical binding]; other site 177437003801 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 177437003802 dimer interface [polypeptide binding]; other site 177437003803 phosphorylation site [posttranslational modification] 177437003804 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 177437003805 ATP binding site [chemical binding]; other site 177437003806 Mg2+ binding site [ion binding]; other site 177437003807 G-X-G motif; other site 177437003808 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177437003809 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 177437003810 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 177437003811 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 177437003812 ABC-ATPase subunit interface; other site 177437003813 dimer interface [polypeptide binding]; other site 177437003814 putative PBP binding regions; other site 177437003815 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 177437003816 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 177437003817 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 177437003818 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 177437003819 metal binding site [ion binding]; metal-binding site 177437003820 dimer interface [polypeptide binding]; other site 177437003821 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 177437003822 active site 177437003823 metal binding site [ion binding]; metal-binding site 177437003824 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437003825 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437003826 metal binding site [ion binding]; metal-binding site 177437003827 active site 177437003828 I-site; other site 177437003829 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437003830 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177437003831 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177437003832 DctM-like transporters; Region: DctM; pfam06808 177437003833 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177437003834 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 177437003835 Domain of unknown function DUF21; Region: DUF21; pfam01595 177437003836 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 177437003837 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177437003838 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 177437003839 dimer interface [polypeptide binding]; other site 177437003840 conserved gate region; other site 177437003841 putative PBP binding loops; other site 177437003842 ABC-ATPase subunit interface; other site 177437003843 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177437003844 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 177437003845 dimer interface [polypeptide binding]; other site 177437003846 conserved gate region; other site 177437003847 putative PBP binding loops; other site 177437003848 ABC-ATPase subunit interface; other site 177437003849 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 177437003850 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 177437003851 substrate binding pocket [chemical binding]; other site 177437003852 membrane-bound complex binding site; other site 177437003853 hinge residues; other site 177437003854 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 177437003855 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437003856 Walker A/P-loop; other site 177437003857 ATP binding site [chemical binding]; other site 177437003858 Q-loop/lid; other site 177437003859 ABC transporter signature motif; other site 177437003860 Walker B; other site 177437003861 D-loop; other site 177437003862 H-loop/switch region; other site 177437003863 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 177437003864 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 177437003865 prolyl-tRNA synthetase; Provisional; Region: PRK08661 177437003866 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 177437003867 dimer interface [polypeptide binding]; other site 177437003868 motif 1; other site 177437003869 active site 177437003870 motif 2; other site 177437003871 motif 3; other site 177437003872 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 177437003873 anticodon binding site; other site 177437003874 zinc-binding site [ion binding]; other site 177437003875 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 177437003876 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437003877 Zn2+ binding site [ion binding]; other site 177437003878 Mg2+ binding site [ion binding]; other site 177437003879 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 177437003880 synthetase active site [active] 177437003881 NTP binding site [chemical binding]; other site 177437003882 metal binding site [ion binding]; metal-binding site 177437003883 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 177437003884 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 177437003885 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 177437003886 Tetratricopeptide repeat; Region: TPR_18; pfam13512 177437003887 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 177437003888 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177437003889 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437003890 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 177437003891 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 177437003892 catalytic residues [active] 177437003893 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 177437003894 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 177437003895 active site 177437003896 substrate binding site [chemical binding]; other site 177437003897 cosubstrate binding site; other site 177437003898 catalytic site [active] 177437003899 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]; Region: COG1916 177437003900 DNA polymerase I; Provisional; Region: PRK05755 177437003901 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 177437003902 active site 177437003903 metal binding site 1 [ion binding]; metal-binding site 177437003904 putative 5' ssDNA interaction site; other site 177437003905 metal binding site 3; metal-binding site 177437003906 metal binding site 2 [ion binding]; metal-binding site 177437003907 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 177437003908 putative DNA binding site [nucleotide binding]; other site 177437003909 putative metal binding site [ion binding]; other site 177437003910 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 177437003911 active site 177437003912 catalytic site [active] 177437003913 substrate binding site [chemical binding]; other site 177437003914 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 177437003915 active site 177437003916 DNA binding site [nucleotide binding] 177437003917 catalytic site [active] 177437003918 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437003919 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 177437003920 ligand binding site [chemical binding]; other site 177437003921 flexible hinge region; other site 177437003922 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 177437003923 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 177437003924 RNA binding site [nucleotide binding]; other site 177437003925 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 177437003926 RNA binding site [nucleotide binding]; other site 177437003927 S1_RPS1_repeat_hs4: 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_hs4; cd05692 177437003928 RNA binding site [nucleotide binding]; other site 177437003929 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 177437003930 RNA binding site [nucleotide binding]; other site 177437003931 domain interface; other site 177437003932 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 177437003933 RNA binding site [nucleotide binding]; other site 177437003934 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 177437003935 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 177437003936 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 177437003937 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177437003938 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 177437003939 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437003940 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437003941 active site 177437003942 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 177437003943 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 177437003944 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177437003945 Walker A motif; other site 177437003946 ATP binding site [chemical binding]; other site 177437003947 Walker B motif; other site 177437003948 arginine finger; other site 177437003949 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 177437003950 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 177437003951 tetramer interface [polypeptide binding]; other site 177437003952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437003953 catalytic residue [active] 177437003954 Proline dehydrogenase; Region: Pro_dh; cl03282 177437003955 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 177437003956 active site 177437003957 substrate binding site [chemical binding]; other site 177437003958 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 177437003959 FMN binding site [chemical binding]; other site 177437003960 putative catalytic residues [active] 177437003961 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 177437003962 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 177437003963 NADP binding site [chemical binding]; other site 177437003964 dimer interface [polypeptide binding]; other site 177437003965 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 177437003966 Zonular occludens toxin (Zot); Region: Zot; cl17485 177437003967 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 177437003968 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 177437003969 Putative transposase; Region: Y2_Tnp; pfam04986 177437003970 potential frameshift: common BLAST hit: gi|91792496|ref|YP_562147.1| phage integrase 177437003971 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 177437003972 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 177437003973 active site 177437003974 Int/Topo IB signature motif; other site 177437003975 DNA binding site [nucleotide binding] 177437003976 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 177437003977 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 177437003978 dimer interface [polypeptide binding]; other site 177437003979 phosphorylation site [posttranslational modification] 177437003980 Response regulator receiver domain; Region: Response_reg; pfam00072 177437003981 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437003982 active site 177437003983 phosphorylation site [posttranslational modification] 177437003984 intermolecular recognition site; other site 177437003985 dimerization interface [polypeptide binding]; other site 177437003986 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 177437003987 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 177437003988 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 177437003989 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 177437003990 putative NAD(P) binding site [chemical binding]; other site 177437003991 putative active site [active] 177437003992 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 177437003993 Protein of unknown function (DUF523); Region: DUF523; pfam04463 177437003994 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG3366 177437003995 Nucleoside recognition; Region: Gate; pfam07670 177437003996 cell division protein MraZ; Reviewed; Region: PRK00326 177437003997 MraZ protein; Region: MraZ; pfam02381 177437003998 MraZ protein; Region: MraZ; pfam02381 177437003999 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 177437004000 MraW methylase family; Region: Methyltransf_5; pfam01795 177437004001 Cell division protein FtsL; Region: FtsL; cl11433 177437004002 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 177437004003 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 177437004004 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 177437004005 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 177437004006 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 177437004007 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177437004008 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177437004009 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 177437004010 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 177437004011 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177437004012 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177437004013 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 177437004014 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 177437004015 Mg++ binding site [ion binding]; other site 177437004016 putative catalytic motif [active] 177437004017 putative substrate binding site [chemical binding]; other site 177437004018 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 177437004019 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177437004020 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177437004021 cell division protein FtsW; Region: ftsW; TIGR02614 177437004022 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 177437004023 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 177437004024 active site 177437004025 homodimer interface [polypeptide binding]; other site 177437004026 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 177437004027 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 177437004028 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177437004029 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177437004030 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 177437004031 FAD binding domain; Region: FAD_binding_4; pfam01565 177437004032 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 177437004033 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 177437004034 cell division protein FtsA; Region: ftsA; TIGR01174 177437004035 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 177437004036 nucleotide binding site [chemical binding]; other site 177437004037 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 177437004038 Cell division protein FtsA; Region: FtsA; pfam14450 177437004039 cell division protein FtsZ; Validated; Region: PRK09330 177437004040 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 177437004041 nucleotide binding site [chemical binding]; other site 177437004042 SulA interaction site; other site 177437004043 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 177437004044 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 177437004045 FeS/SAM binding site; other site 177437004046 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 177437004047 3-mercaptopyruvate sulfurtransferase; Region: PLN02723 177437004048 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 177437004049 active site residue [active] 177437004050 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 177437004051 active site residue [active] 177437004052 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 177437004053 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 177437004054 active site residue [active] 177437004055 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 177437004056 active site residue [active] 177437004057 Uncharacterized conserved protein [Function unknown]; Region: COG0398 177437004058 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 177437004059 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 177437004060 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437004061 Cysteine-rich domain; Region: CCG; pfam02754 177437004062 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 177437004063 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 177437004064 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 177437004065 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 177437004066 trimer interface [polypeptide binding]; other site 177437004067 putative metal binding site [ion binding]; other site 177437004068 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 177437004069 hypothetical protein; Provisional; Region: PRK07079 177437004070 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 177437004071 metal binding site [ion binding]; metal-binding site 177437004072 putative dimer interface [polypeptide binding]; other site 177437004073 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 177437004074 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177437004075 Walker A/P-loop; other site 177437004076 ATP binding site [chemical binding]; other site 177437004077 Q-loop/lid; other site 177437004078 ABC transporter signature motif; other site 177437004079 Walker B; other site 177437004080 D-loop; other site 177437004081 H-loop/switch region; other site 177437004082 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 177437004083 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 177437004084 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177437004085 Walker A/P-loop; other site 177437004086 ATP binding site [chemical binding]; other site 177437004087 Q-loop/lid; other site 177437004088 ABC transporter signature motif; other site 177437004089 Walker B; other site 177437004090 D-loop; other site 177437004091 H-loop/switch region; other site 177437004092 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 177437004093 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 177437004094 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 177437004095 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 177437004096 dimer interface [polypeptide binding]; other site 177437004097 conserved gate region; other site 177437004098 putative PBP binding loops; other site 177437004099 ABC-ATPase subunit interface; other site 177437004100 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 177437004101 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 177437004102 dimer interface [polypeptide binding]; other site 177437004103 conserved gate region; other site 177437004104 putative PBP binding loops; other site 177437004105 ABC-ATPase subunit interface; other site 177437004106 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_10; cd08515 177437004107 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 177437004108 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 177437004109 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 177437004110 metal binding site [ion binding]; metal-binding site 177437004111 dimer interface [polypeptide binding]; other site 177437004112 Transcriptional regulator [Transcription]; Region: IclR; COG1414 177437004113 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 177437004114 Bacterial transcriptional regulator; Region: IclR; pfam01614 177437004115 Predicted integral membrane protein [Function unknown]; Region: COG0392 177437004116 Uncharacterized conserved protein [Function unknown]; Region: COG2898 177437004117 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 177437004118 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177437004119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 177437004120 FecR protein; Region: FecR; pfam04773 177437004121 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 177437004122 CHASE2 domain; Region: CHASE2; pfam05226 177437004123 sensory histidine kinase AtoS; Provisional; Region: PRK11360 177437004124 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 177437004125 dimer interface [polypeptide binding]; other site 177437004126 phosphorylation site [posttranslational modification] 177437004127 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 177437004128 ATP binding site [chemical binding]; other site 177437004129 Mg2+ binding site [ion binding]; other site 177437004130 G-X-G motif; other site 177437004131 Response regulator receiver domain; Region: Response_reg; pfam00072 177437004132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437004133 active site 177437004134 phosphorylation site [posttranslational modification] 177437004135 intermolecular recognition site; other site 177437004136 dimerization interface [polypeptide binding]; other site 177437004137 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 177437004138 MgtE intracellular N domain; Region: MgtE_N; pfam03448 177437004139 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 177437004140 Divalent cation transporter; Region: MgtE; cl00786 177437004141 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 177437004142 Domain of unknown function (DUF307); Region: DUF307; pfam03733 177437004143 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 177437004144 active site 177437004145 catalytic triad [active] 177437004146 oxyanion hole [active] 177437004147 Archaeal/vacuolar-type H+-ATPase subunit H [Energy production and conversion]; Region: NtpF; COG2811 177437004148 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 177437004149 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177437004150 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 177437004151 Walker A motif; other site 177437004152 ATP binding site [chemical binding]; other site 177437004153 Walker B motif; other site 177437004154 arginine finger; other site 177437004155 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 177437004156 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 177437004157 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 177437004158 PAAR motif; Region: PAAR_motif; pfam05488 177437004159 Phage protein D [General function prediction only]; Region: COG3500 177437004160 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 177437004161 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 177437004162 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 177437004163 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177437004164 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 177437004165 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 177437004166 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 177437004167 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 177437004168 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 177437004169 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 177437004170 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 177437004171 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 177437004172 active site 177437004173 Zn binding site [ion binding]; other site 177437004174 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437004175 Coenzyme A binding pocket [chemical binding]; other site 177437004176 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 177437004177 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177437004178 D-alanine-D-alanine ligase and related ATP-grasp enzymes [Cell envelope biogenesis, outer membrane]; Region: DdlA; COG1181 177437004179 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177437004180 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 177437004181 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 177437004182 FeS/SAM binding site; other site 177437004183 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 177437004184 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437004185 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 177437004186 Walker B motif; other site 177437004187 arginine finger; other site 177437004188 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437004189 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 177437004190 Sulfate transporter family; Region: Sulfate_transp; pfam00916 177437004191 TIGR03790 family protein; Region: TIGR03790 177437004192 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 177437004193 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 177437004194 CoA binding domain; Region: CoA_binding_2; pfam13380 177437004195 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 177437004196 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 177437004197 core domain interface [polypeptide binding]; other site 177437004198 delta subunit interface [polypeptide binding]; other site 177437004199 epsilon subunit interface [polypeptide binding]; other site 177437004200 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 177437004201 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 177437004202 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 177437004203 Walker A motif; other site 177437004204 ATP binding site [chemical binding]; other site 177437004205 Walker B motif; other site 177437004206 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 177437004207 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 177437004208 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 177437004209 ATP synthase subunit C; Region: ATP-synt_C; cl00466 177437004210 ATP synthase A chain; Region: ATP-synt_A; cl00413 177437004211 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 177437004212 N-ATPase, AtpR subunit; Region: AtpR; pfam12966 177437004213 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 177437004214 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 177437004215 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 177437004216 gamma subunit interface [polypeptide binding]; other site 177437004217 epsilon subunit interface [polypeptide binding]; other site 177437004218 LBP interface [polypeptide binding]; other site 177437004219 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 177437004220 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 177437004221 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 177437004222 alpha subunit interaction interface [polypeptide binding]; other site 177437004223 Walker A motif; other site 177437004224 ATP binding site [chemical binding]; other site 177437004225 Walker B motif; other site 177437004226 inhibitor binding site; inhibition site 177437004227 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 177437004228 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 177437004229 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 177437004230 active site 177437004231 metal binding site [ion binding]; metal-binding site 177437004232 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 177437004233 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 177437004234 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 177437004235 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 177437004236 intersubunit interface [polypeptide binding]; other site 177437004237 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 177437004238 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 177437004239 ABC-ATPase subunit interface; other site 177437004240 dimer interface [polypeptide binding]; other site 177437004241 putative PBP binding regions; other site 177437004242 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 177437004243 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 177437004244 Walker A/P-loop; other site 177437004245 ATP binding site [chemical binding]; other site 177437004246 Q-loop/lid; other site 177437004247 ABC transporter signature motif; other site 177437004248 Walker B; other site 177437004249 D-loop; other site 177437004250 H-loop/switch region; other site 177437004251 NTPase; Region: NTPase_1; cl17478 177437004252 Uncharacterized conserved protein [Function unknown]; Region: COG2014 177437004253 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 177437004254 Domain of unknown function (DUF364); Region: DUF364; pfam04016 177437004255 GTP-binding protein YchF; Reviewed; Region: PRK09601 177437004256 YchF GTPase; Region: YchF; cd01900 177437004257 G1 box; other site 177437004258 GTP/Mg2+ binding site [chemical binding]; other site 177437004259 Switch I region; other site 177437004260 G2 box; other site 177437004261 Switch II region; other site 177437004262 G3 box; other site 177437004263 G4 box; other site 177437004264 G5 box; other site 177437004265 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 177437004266 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 177437004267 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 177437004268 putative ribose interaction site [chemical binding]; other site 177437004269 putative ADP binding site [chemical binding]; other site 177437004270 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 177437004271 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 177437004272 motif II; other site 177437004273 homoserine dehydrogenase; Provisional; Region: PRK06349 177437004274 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 177437004275 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 177437004276 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 177437004277 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 177437004278 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 177437004279 dimerization interface [polypeptide binding]; other site 177437004280 putative ATP binding site [chemical binding]; other site 177437004281 UGMP family protein; Validated; Region: PRK09604 177437004282 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 177437004283 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 177437004284 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 177437004285 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177437004286 EamA-like transporter family; Region: EamA; pfam00892 177437004287 EamA-like transporter family; Region: EamA; pfam00892 177437004288 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 177437004289 active site 177437004290 intersubunit interface [polypeptide binding]; other site 177437004291 Zn2+ binding site [ion binding]; other site 177437004292 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 177437004293 Bacterial SH3 domain; Region: SH3_3; pfam08239 177437004294 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 177437004295 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 177437004296 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 177437004297 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 177437004298 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 177437004299 putative active site [active] 177437004300 metal binding site [ion binding]; metal-binding site 177437004301 PAS domain; Region: PAS_9; pfam13426 177437004302 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437004303 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 177437004304 ATP binding site [chemical binding]; other site 177437004305 Mg2+ binding site [ion binding]; other site 177437004306 G-X-G motif; other site 177437004307 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 177437004308 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 177437004309 acyl-activating enzyme (AAE) consensus motif; other site 177437004310 putative AMP binding site [chemical binding]; other site 177437004311 putative active site [active] 177437004312 putative CoA binding site [chemical binding]; other site 177437004313 Response regulator receiver domain; Region: Response_reg; pfam00072 177437004314 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437004315 active site 177437004316 phosphorylation site [posttranslational modification] 177437004317 intermolecular recognition site; other site 177437004318 dimerization interface [polypeptide binding]; other site 177437004319 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 177437004320 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 177437004321 PAS domain; Region: PAS_9; pfam13426 177437004322 putative active site [active] 177437004323 heme pocket [chemical binding]; other site 177437004324 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 177437004325 Histidine kinase; Region: HisKA_3; pfam07730 177437004326 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 177437004327 ATP binding site [chemical binding]; other site 177437004328 Mg2+ binding site [ion binding]; other site 177437004329 G-X-G motif; other site 177437004330 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177437004331 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437004332 active site 177437004333 phosphorylation site [posttranslational modification] 177437004334 intermolecular recognition site; other site 177437004335 dimerization interface [polypeptide binding]; other site 177437004336 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 177437004337 DNA binding residues [nucleotide binding] 177437004338 dimerization interface [polypeptide binding]; other site 177437004339 malate dehydrogenase; Provisional; Region: PRK13529 177437004340 Malic enzyme, N-terminal domain; Region: malic; pfam00390 177437004341 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 177437004342 NAD(P) binding site [chemical binding]; other site 177437004343 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 177437004344 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 177437004345 Walker A/P-loop; other site 177437004346 ATP binding site [chemical binding]; other site 177437004347 Q-loop/lid; other site 177437004348 ABC transporter signature motif; other site 177437004349 Walker B; other site 177437004350 D-loop; other site 177437004351 H-loop/switch region; other site 177437004352 TOBE domain; Region: TOBE_2; pfam08402 177437004353 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 177437004354 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 177437004355 dimer interface [polypeptide binding]; other site 177437004356 conserved gate region; other site 177437004357 putative PBP binding loops; other site 177437004358 ABC-ATPase subunit interface; other site 177437004359 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 177437004360 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 177437004361 dimer interface [polypeptide binding]; other site 177437004362 conserved gate region; other site 177437004363 putative PBP binding loops; other site 177437004364 ABC-ATPase subunit interface; other site 177437004365 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 177437004366 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 177437004367 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 177437004368 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 177437004369 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 177437004370 Walker A motif; other site 177437004371 ATP binding site [chemical binding]; other site 177437004372 Walker B motif; other site 177437004373 Uncharacterized conserved protein [Function unknown]; Region: COG2308 177437004374 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 177437004375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 177437004376 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 177437004377 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 177437004378 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 177437004379 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 177437004380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 177437004381 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 177437004382 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 177437004383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 177437004384 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 177437004385 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 177437004386 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 177437004387 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 177437004388 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 177437004389 active site residue [active] 177437004390 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 177437004391 active site residue [active] 177437004392 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 177437004393 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 177437004394 active site residue [active] 177437004395 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 177437004396 active site residue [active] 177437004397 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 177437004398 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 177437004399 DXD motif; other site 177437004400 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 177437004401 active site residue [active] 177437004402 Rhodanese-like domain; Region: Rhodanese; pfam00581 177437004403 active site residue [active] 177437004404 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 177437004405 active site 177437004406 putative cation:proton antiport protein; Provisional; Region: PRK10669 177437004407 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 177437004408 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 177437004409 TrkA-N domain; Region: TrkA_N; pfam02254 177437004410 TrkA-C domain; Region: TrkA_C; pfam02080 177437004411 methionine aminotransferase; Validated; Region: PRK09082 177437004412 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 177437004413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437004414 homodimer interface [polypeptide binding]; other site 177437004415 catalytic residue [active] 177437004416 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 177437004417 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 177437004418 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 177437004419 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 177437004420 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 177437004421 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 177437004422 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 177437004423 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 177437004424 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177437004425 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 177437004426 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 177437004427 DctM-like transporters; Region: DctM; pfam06808 177437004428 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 177437004429 Cysteine-rich domain; Region: CCG; pfam02754 177437004430 Cysteine-rich domain; Region: CCG; pfam02754 177437004431 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 177437004432 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 177437004433 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 177437004434 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 177437004435 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 177437004436 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177437004437 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 177437004438 dimer interface [polypeptide binding]; other site 177437004439 conserved gate region; other site 177437004440 putative PBP binding loops; other site 177437004441 ABC-ATPase subunit interface; other site 177437004442 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177437004443 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177437004444 Walker A/P-loop; other site 177437004445 ATP binding site [chemical binding]; other site 177437004446 Q-loop/lid; other site 177437004447 ABC transporter signature motif; other site 177437004448 Walker B; other site 177437004449 D-loop; other site 177437004450 H-loop/switch region; other site 177437004451 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 177437004452 putative PBP binding loops; other site 177437004453 dimer interface [polypeptide binding]; other site 177437004454 ABC-ATPase subunit interface; other site 177437004455 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437004456 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 177437004457 substrate binding pocket [chemical binding]; other site 177437004458 membrane-bound complex binding site; other site 177437004459 hinge residues; other site 177437004460 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 177437004461 Cysteine-rich domain; Region: CCG; pfam02754 177437004462 Cysteine-rich domain; Region: CCG; pfam02754 177437004463 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 177437004464 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437004465 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437004466 metal binding site [ion binding]; metal-binding site 177437004467 active site 177437004468 I-site; other site 177437004469 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 177437004470 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 177437004471 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 177437004472 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 177437004473 putative PBP binding loops; other site 177437004474 ABC-ATPase subunit interface; other site 177437004475 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 177437004476 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 177437004477 dimer interface [polypeptide binding]; other site 177437004478 conserved gate region; other site 177437004479 putative PBP binding loops; other site 177437004480 ABC-ATPase subunit interface; other site 177437004481 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 177437004482 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437004483 Walker A/P-loop; other site 177437004484 ATP binding site [chemical binding]; other site 177437004485 Q-loop/lid; other site 177437004486 ABC transporter signature motif; other site 177437004487 Walker B; other site 177437004488 D-loop; other site 177437004489 H-loop/switch region; other site 177437004490 TOBE domain; Region: TOBE_2; pfam08402 177437004491 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 177437004492 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437004493 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 177437004494 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 177437004495 inhibitor-cofactor binding pocket; inhibition site 177437004496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437004497 catalytic residue [active] 177437004498 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 177437004499 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 177437004500 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 177437004501 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 177437004502 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 177437004503 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 177437004504 PAS domain; Region: PAS_9; pfam13426 177437004505 putative active site [active] 177437004506 heme pocket [chemical binding]; other site 177437004507 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177437004508 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 177437004509 Walker A motif; other site 177437004510 ATP binding site [chemical binding]; other site 177437004511 Walker B motif; other site 177437004512 arginine finger; other site 177437004513 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 177437004514 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 177437004515 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 177437004516 methyltransferase cognate corrinoid proteins, Methanosarcina family; Region: pyl_corrinoid; TIGR02370 177437004517 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 177437004518 B12 binding site [chemical binding]; other site 177437004519 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 177437004520 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 177437004521 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 177437004522 putative NAD(P) binding site [chemical binding]; other site 177437004523 catalytic Zn binding site [ion binding]; other site 177437004524 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 177437004525 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 177437004526 putative [Fe4-S4] binding site [ion binding]; other site 177437004527 putative molybdopterin cofactor binding site [chemical binding]; other site 177437004528 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 177437004529 putative molybdopterin cofactor binding site; other site 177437004530 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437004531 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 177437004532 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 177437004533 Cache domain; Region: Cache_1; pfam02743 177437004534 HAMP domain; Region: HAMP; pfam00672 177437004535 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 177437004536 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177437004537 putative active site [active] 177437004538 heme pocket [chemical binding]; other site 177437004539 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437004540 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 177437004541 putative active site [active] 177437004542 heme pocket [chemical binding]; other site 177437004543 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 177437004544 dimer interface [polypeptide binding]; other site 177437004545 phosphorylation site [posttranslational modification] 177437004546 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 177437004547 ATP binding site [chemical binding]; other site 177437004548 Mg2+ binding site [ion binding]; other site 177437004549 G-X-G motif; other site 177437004550 Response regulator receiver domain; Region: Response_reg; pfam00072 177437004551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437004552 active site 177437004553 phosphorylation site [posttranslational modification] 177437004554 intermolecular recognition site; other site 177437004555 dimerization interface [polypeptide binding]; other site 177437004556 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 177437004557 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 177437004558 FeS/SAM binding site; other site 177437004559 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 177437004560 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177437004561 GAF domain; Region: GAF; pfam01590 177437004562 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 177437004563 Histidine kinase; Region: HisKA_3; pfam07730 177437004564 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 177437004565 ATP binding site [chemical binding]; other site 177437004566 Mg2+ binding site [ion binding]; other site 177437004567 G-X-G motif; other site 177437004568 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177437004569 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437004570 active site 177437004571 phosphorylation site [posttranslational modification] 177437004572 intermolecular recognition site; other site 177437004573 dimerization interface [polypeptide binding]; other site 177437004574 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 177437004575 DNA binding residues [nucleotide binding] 177437004576 dimerization interface [polypeptide binding]; other site 177437004577 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 177437004578 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 177437004579 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 177437004580 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 177437004581 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437004582 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437004583 Ferredoxin [Energy production and conversion]; Region: COG1146 177437004584 4Fe-4S binding domain; Region: Fer4; pfam00037 177437004585 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437004586 4Fe-4S binding domain; Region: Fer4_6; pfam12837 177437004587 4Fe-4S binding domain; Region: Fer4; pfam00037 177437004588 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 177437004589 4Fe-4S binding domain; Region: Fer4; pfam00037 177437004590 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 177437004591 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 177437004592 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 177437004593 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 177437004594 [4Fe-4S] binding site [ion binding]; other site 177437004595 molybdopterin cofactor binding site; other site 177437004596 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 177437004597 molybdopterin cofactor binding site; other site 177437004598 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 177437004599 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 177437004600 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437004601 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 177437004602 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 177437004603 Domain of unknown function (DUF336); Region: DUF336; pfam03928 177437004604 DNA polymerase II; Reviewed; Region: PRK05762 177437004605 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 177437004606 active site 177437004607 catalytic site [active] 177437004608 substrate binding site [chemical binding]; other site 177437004609 DNA polymerase type-B family catalytic domain. DNA-directed DNA polymerases elongate DNA by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA. DNA-directed DNA polymerases are multifunctional with both...; Region: POLBc; cl10023 177437004610 active site 177437004611 metal-binding site 177437004612 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 177437004613 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437004614 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437004615 active site 177437004616 phosphorylation site [posttranslational modification] 177437004617 intermolecular recognition site; other site 177437004618 dimerization interface [polypeptide binding]; other site 177437004619 Cache domain; Region: Cache_1; pfam02743 177437004620 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 177437004621 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437004622 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 177437004623 dimer interface [polypeptide binding]; other site 177437004624 phosphorylation site [posttranslational modification] 177437004625 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 177437004626 ATP binding site [chemical binding]; other site 177437004627 Mg2+ binding site [ion binding]; other site 177437004628 G-X-G motif; other site 177437004629 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437004630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437004631 active site 177437004632 phosphorylation site [posttranslational modification] 177437004633 intermolecular recognition site; other site 177437004634 dimerization interface [polypeptide binding]; other site 177437004635 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437004636 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 177437004637 Walker A/P-loop; other site 177437004638 ATP binding site [chemical binding]; other site 177437004639 Q-loop/lid; other site 177437004640 ABC transporter signature motif; other site 177437004641 Walker B; other site 177437004642 D-loop; other site 177437004643 H-loop/switch region; other site 177437004644 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 177437004645 FtsX-like permease family; Region: FtsX; pfam02687 177437004646 NosL; Region: NosL; cl01769 177437004647 Family description; Region: DsbD_2; pfam13386 177437004648 NosL; Region: NosL; cl01769 177437004649 NosL; Region: NosL; cl01769 177437004650 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 177437004651 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 177437004652 putative NAD(P) binding site [chemical binding]; other site 177437004653 putative active site [active] 177437004654 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 177437004655 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 177437004656 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 177437004657 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 177437004658 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 177437004659 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 177437004660 Metal-binding active site; metal-binding site 177437004661 3-dehydroquinate synthase; Reviewed; Region: aroB; PRK06203 177437004662 active site 177437004663 NAD binding site [chemical binding]; other site 177437004664 metal binding site [ion binding]; metal-binding site 177437004665 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 177437004666 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 177437004667 S-adenosylmethionine binding site [chemical binding]; other site 177437004668 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; COG0382 177437004669 UbiA prenyltransferase family; Region: UbiA; pfam01040 177437004670 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 177437004671 Preprotein translocase subunit; Region: YajC; cl00806 177437004672 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 177437004673 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 177437004674 ATP binding site [chemical binding]; other site 177437004675 putative Mg++ binding site [ion binding]; other site 177437004676 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 177437004677 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 177437004678 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 177437004679 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177437004680 Walker A motif; other site 177437004681 ATP binding site [chemical binding]; other site 177437004682 Walker B motif; other site 177437004683 arginine finger; other site 177437004684 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 177437004685 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 177437004686 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 177437004687 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 177437004688 ATP binding site [chemical binding]; other site 177437004689 putative Mg++ binding site [ion binding]; other site 177437004690 nucleotide binding region [chemical binding]; other site 177437004691 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 177437004692 ATP-binding site [chemical binding]; other site 177437004693 HsdM N-terminal domain; Region: HsdM_N; pfam12161 177437004694 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 177437004695 Methyltransferase domain; Region: Methyltransf_26; pfam13659 177437004696 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 177437004697 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 177437004698 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 177437004699 AAA domain; Region: AAA_23; pfam13476 177437004700 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437004701 AAA domain; Region: AAA_21; pfam13304 177437004702 Walker A/P-loop; other site 177437004703 ATP binding site [chemical binding]; other site 177437004704 AAA domain; Region: AAA_21; pfam13304 177437004705 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 177437004706 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 177437004707 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 177437004708 metal ion-dependent adhesion site (MIDAS); other site 177437004709 Protein phosphatase 2C; Region: PP2C_2; pfam13672 177437004710 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 177437004711 active site 177437004712 ATP binding site [chemical binding]; other site 177437004713 substrate binding site [chemical binding]; other site 177437004714 activation loop (A-loop); other site 177437004715 AAA domain; Region: AAA_11; pfam13086 177437004716 Part of AAA domain; Region: AAA_19; pfam13245 177437004717 AAA domain; Region: AAA_11; pfam13086 177437004718 AAA domain; Region: AAA_12; pfam13087 177437004719 AAA ATPase domain; Region: AAA_16; pfam13191 177437004720 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 177437004721 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 177437004722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 177437004723 Putative addiction module component; Region: Unstab_antitox; pfam09720 177437004724 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 177437004725 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 177437004726 MarR family; Region: MarR; pfam01047 177437004727 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 177437004728 L-aspartate oxidase; Provisional; Region: PRK06175 177437004729 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 177437004730 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 177437004731 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437004732 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 177437004733 putative substrate translocation pore; other site 177437004734 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 177437004735 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 177437004736 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177437004737 FeS/SAM binding site; other site 177437004738 short chain dehydrogenase; Provisional; Region: PRK12827 177437004739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437004740 NAD(P) binding site [chemical binding]; other site 177437004741 active site 177437004742 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 177437004743 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 177437004744 putative NAD(P) binding site [chemical binding]; other site 177437004745 Predicted transcriptional regulators [Transcription]; Region: COG1733 177437004746 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 177437004747 Protein of unknown function DUF262; Region: DUF262; pfam03235 177437004748 Uncharacterized conserved protein [Function unknown]; Region: COG4938 177437004749 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 177437004750 Cache domain; Region: Cache_2; cl07034 177437004751 PAS domain S-box; Region: sensory_box; TIGR00229 177437004752 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 177437004753 putative active site [active] 177437004754 heme pocket [chemical binding]; other site 177437004755 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 177437004756 dimer interface [polypeptide binding]; other site 177437004757 phosphorylation site [posttranslational modification] 177437004758 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 177437004759 ATP binding site [chemical binding]; other site 177437004760 Mg2+ binding site [ion binding]; other site 177437004761 G-X-G motif; other site 177437004762 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437004763 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437004764 active site 177437004765 phosphorylation site [posttranslational modification] 177437004766 intermolecular recognition site; other site 177437004767 dimerization interface [polypeptide binding]; other site 177437004768 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 177437004769 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 177437004770 metal-binding site [ion binding] 177437004771 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 177437004772 Soluble P-type ATPase [General function prediction only]; Region: COG4087 177437004773 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 177437004774 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 177437004775 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 177437004776 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 177437004777 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 177437004778 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 177437004779 D-pathway; other site 177437004780 Low-spin heme binding site [chemical binding]; other site 177437004781 Putative water exit pathway; other site 177437004782 Binuclear center (active site) [active] 177437004783 K-pathway; other site 177437004784 Putative proton exit pathway; other site 177437004785 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 177437004786 heme-binding residues [chemical binding]; other site 177437004787 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 177437004788 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 177437004789 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 177437004790 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 177437004791 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 177437004792 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 177437004793 molybdopterin cofactor binding site; other site 177437004794 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 177437004795 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 177437004796 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 177437004797 4Fe-4S binding domain; Region: Fer4_2; pfam12797 177437004798 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 177437004799 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 177437004800 S-adenosylmethionine binding site [chemical binding]; other site 177437004801 ABC1 family; Region: ABC1; cl17513 177437004802 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 177437004803 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 177437004804 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 177437004805 hinge residues; other site 177437004806 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 177437004807 Ligand Binding Site [chemical binding]; other site 177437004808 pyrrolysyl-tRNA synthetase, N-terminal region; Region: PylS_Nterm; TIGR03912 177437004809 pyrrolysine biosynthesis radical SAM protein; Region: pyrrolys_PylB; TIGR03910 177437004810 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 177437004811 FeS/SAM binding site; other site 177437004812 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 177437004813 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 177437004814 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 177437004815 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437004816 active site 177437004817 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 177437004818 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 177437004819 Transcriptional regulators [Transcription]; Region: GntR; COG1802 177437004820 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437004821 DNA-binding site [nucleotide binding]; DNA binding site 177437004822 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 177437004823 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 177437004824 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 177437004825 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437004826 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 177437004827 substrate binding pocket [chemical binding]; other site 177437004828 membrane-bound complex binding site; other site 177437004829 hinge residues; other site 177437004830 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 177437004831 dimer interface [polypeptide binding]; other site 177437004832 conserved gate region; other site 177437004833 putative PBP binding loops; other site 177437004834 ABC-ATPase subunit interface; other site 177437004835 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 177437004836 dimer interface [polypeptide binding]; other site 177437004837 conserved gate region; other site 177437004838 putative PBP binding loops; other site 177437004839 ABC-ATPase subunit interface; other site 177437004840 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177437004841 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177437004842 Walker A/P-loop; other site 177437004843 ATP binding site [chemical binding]; other site 177437004844 Q-loop/lid; other site 177437004845 ABC transporter signature motif; other site 177437004846 Walker B; other site 177437004847 D-loop; other site 177437004848 H-loop/switch region; other site 177437004849 D-cysteine desulfhydrase; Validated; Region: PRK03910 177437004850 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 177437004851 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177437004852 catalytic residue [active] 177437004853 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 177437004854 TPR motif; other site 177437004855 binding surface 177437004856 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 177437004857 Transglycosylase; Region: Transgly; pfam00912 177437004858 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 177437004859 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 177437004860 thiamine phosphate binding site [chemical binding]; other site 177437004861 active site 177437004862 pyrophosphate binding site [ion binding]; other site 177437004863 SnoaL-like domain; Region: SnoaL_3; pfam13474 177437004864 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437004865 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437004866 metal binding site [ion binding]; metal-binding site 177437004867 active site 177437004868 I-site; other site 177437004869 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 177437004870 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 177437004871 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 177437004872 dimer interface [polypeptide binding]; other site 177437004873 active site 177437004874 metal binding site [ion binding]; metal-binding site 177437004875 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437004876 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437004877 active site 177437004878 phosphorylation site [posttranslational modification] 177437004879 intermolecular recognition site; other site 177437004880 dimerization interface [polypeptide binding]; other site 177437004881 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 177437004882 Walker A motif; other site 177437004883 ATP binding site [chemical binding]; other site 177437004884 Walker B motif; other site 177437004885 arginine finger; other site 177437004886 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437004887 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 177437004888 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 177437004889 dimer interface [polypeptide binding]; other site 177437004890 phosphorylation site [posttranslational modification] 177437004891 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 177437004892 ATP binding site [chemical binding]; other site 177437004893 Mg2+ binding site [ion binding]; other site 177437004894 G-X-G motif; other site 177437004895 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH4; cd08188 177437004896 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 177437004897 putative active site [active] 177437004898 metal binding site [ion binding]; metal-binding site 177437004899 Peptidase family M48; Region: Peptidase_M48; pfam01435 177437004900 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 177437004901 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 177437004902 Cl- binding residues [ion binding]; other site 177437004903 dimer interface [polypeptide binding]; other site 177437004904 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 177437004905 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 177437004906 catalytic core [active] 177437004907 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 177437004908 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 177437004909 dimer interface [polypeptide binding]; other site 177437004910 pyridoxal binding site [chemical binding]; other site 177437004911 ATP binding site [chemical binding]; other site 177437004912 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 177437004913 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 177437004914 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: COG2248 177437004915 hypothetical protein; Provisional; Region: PRK04286 177437004916 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177437004917 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 177437004918 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 177437004919 catalytic residues [active] 177437004920 Transposase; Region: DEDD_Tnp_IS110; pfam01548 177437004921 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 177437004922 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 177437004923 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 177437004924 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437004925 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437004926 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437004927 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 177437004928 Walker A/P-loop; other site 177437004929 ATP binding site [chemical binding]; other site 177437004930 Q-loop/lid; other site 177437004931 ABC transporter signature motif; other site 177437004932 Walker B; other site 177437004933 D-loop; other site 177437004934 H-loop/switch region; other site 177437004935 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437004936 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 177437004937 Walker A/P-loop; other site 177437004938 ATP binding site [chemical binding]; other site 177437004939 Q-loop/lid; other site 177437004940 ABC transporter signature motif; other site 177437004941 Walker B; other site 177437004942 D-loop; other site 177437004943 H-loop/switch region; other site 177437004944 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 177437004945 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 177437004946 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 177437004947 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 177437004948 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 177437004949 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 177437004950 D-cysteine desulfhydrase; Validated; Region: PRK03910 177437004951 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 177437004952 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177437004953 catalytic residue [active] 177437004954 Transcriptional regulators [Transcription]; Region: GntR; COG1802 177437004955 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437004956 DNA-binding site [nucleotide binding]; DNA binding site 177437004957 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 177437004958 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 177437004959 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 177437004960 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 177437004961 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 177437004962 FeS/SAM binding site; other site 177437004963 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 177437004964 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 177437004965 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177437004966 FeS/SAM binding site; other site 177437004967 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177437004968 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 177437004969 S-adenosylmethionine binding site [chemical binding]; other site 177437004970 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 177437004971 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 177437004972 Na binding site [ion binding]; other site 177437004973 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437004974 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437004975 active site 177437004976 phosphorylation site [posttranslational modification] 177437004977 intermolecular recognition site; other site 177437004978 dimerization interface [polypeptide binding]; other site 177437004979 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437004980 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437004981 metal binding site [ion binding]; metal-binding site 177437004982 active site 177437004983 I-site; other site 177437004984 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 177437004985 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437004986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437004987 active site 177437004988 phosphorylation site [posttranslational modification] 177437004989 intermolecular recognition site; other site 177437004990 dimerization interface [polypeptide binding]; other site 177437004991 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 177437004992 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 177437004993 dimer interface [polypeptide binding]; other site 177437004994 phosphorylation site [posttranslational modification] 177437004995 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 177437004996 ATP binding site [chemical binding]; other site 177437004997 Mg2+ binding site [ion binding]; other site 177437004998 G-X-G motif; other site 177437004999 Response regulator receiver domain; Region: Response_reg; pfam00072 177437005000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437005001 active site 177437005002 phosphorylation site [posttranslational modification] 177437005003 intermolecular recognition site; other site 177437005004 dimerization interface [polypeptide binding]; other site 177437005005 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 177437005006 ATP binding site [chemical binding]; other site 177437005007 Mg2+ binding site [ion binding]; other site 177437005008 G-X-G motif; other site 177437005009 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 177437005010 potential frameshift: common BLAST hit: gi|77918617|ref|YP_356432.1| two component signal transduction sensor 177437005011 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177437005012 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 177437005013 dimerization interface [polypeptide binding]; other site 177437005014 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177437005015 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 177437005016 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 177437005017 ATP binding site [chemical binding]; other site 177437005018 Mg2+ binding site [ion binding]; other site 177437005019 G-X-G motif; other site 177437005020 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 177437005021 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 177437005022 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 177437005023 4Fe-4S binding domain; Region: Fer4_5; pfam12801 177437005024 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437005025 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 177437005026 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 177437005027 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437005028 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437005029 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177437005030 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437005031 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437005032 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 177437005033 Protein export membrane protein; Region: SecD_SecF; cl14618 177437005034 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 177437005035 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 177437005036 PAS domain; Region: PAS_9; pfam13426 177437005037 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 177437005038 PAS domain; Region: PAS_9; pfam13426 177437005039 putative active site [active] 177437005040 heme pocket [chemical binding]; other site 177437005041 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177437005042 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 177437005043 Walker A motif; other site 177437005044 ATP binding site [chemical binding]; other site 177437005045 Walker B motif; other site 177437005046 arginine finger; other site 177437005047 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437005048 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 177437005049 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 177437005050 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 177437005051 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437005052 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437005053 putative substrate translocation pore; other site 177437005054 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 177437005055 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 177437005056 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437005057 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437005058 metal binding site [ion binding]; metal-binding site 177437005059 active site 177437005060 I-site; other site 177437005061 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 177437005062 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177437005063 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 177437005064 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 177437005065 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 177437005066 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 177437005067 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 177437005068 TatD related DNase; Region: TatD_DNase; pfam01026 177437005069 active site 177437005070 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 177437005071 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 177437005072 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 177437005073 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 177437005074 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 177437005075 NAD(P) binding site [chemical binding]; other site 177437005076 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 177437005077 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 177437005078 putative dimer interface [polypeptide binding]; other site 177437005079 active site pocket [active] 177437005080 putative cataytic base [active] 177437005081 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 177437005082 Cache domain; Region: Cache_1; pfam02743 177437005083 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177437005084 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 177437005085 dimerization interface [polypeptide binding]; other site 177437005086 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 177437005087 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 177437005088 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 177437005089 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 177437005090 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 177437005091 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437005092 active site 177437005093 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 177437005094 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 177437005095 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 177437005096 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 177437005097 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 177437005098 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 177437005099 putative active site [active] 177437005100 heme pocket [chemical binding]; other site 177437005101 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 177437005102 Walker A motif; other site 177437005103 ATP binding site [chemical binding]; other site 177437005104 Walker B motif; other site 177437005105 arginine finger; other site 177437005106 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437005107 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 177437005108 active site residue [active] 177437005109 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177437005110 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 177437005111 DctM-like transporters; Region: DctM; pfam06808 177437005112 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 177437005113 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 177437005114 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 177437005115 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 177437005116 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 177437005117 intersubunit interface [polypeptide binding]; other site 177437005118 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 177437005119 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 177437005120 Walker A/P-loop; other site 177437005121 ATP binding site [chemical binding]; other site 177437005122 Q-loop/lid; other site 177437005123 ABC transporter signature motif; other site 177437005124 Walker B; other site 177437005125 D-loop; other site 177437005126 H-loop/switch region; other site 177437005127 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 177437005128 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 177437005129 ABC-ATPase subunit interface; other site 177437005130 dimer interface [polypeptide binding]; other site 177437005131 putative PBP binding regions; other site 177437005132 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 177437005133 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 177437005134 N-terminal plug; other site 177437005135 ligand-binding site [chemical binding]; other site 177437005136 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 177437005137 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437005138 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 177437005139 putative active site [active] 177437005140 heme pocket [chemical binding]; other site 177437005141 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 177437005142 dimer interface [polypeptide binding]; other site 177437005143 phosphorylation site [posttranslational modification] 177437005144 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 177437005145 ATP binding site [chemical binding]; other site 177437005146 Mg2+ binding site [ion binding]; other site 177437005147 G-X-G motif; other site 177437005148 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437005149 active site 177437005150 phosphorylation site [posttranslational modification] 177437005151 intermolecular recognition site; other site 177437005152 dimerization interface [polypeptide binding]; other site 177437005153 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 177437005154 active site 177437005155 catalytic residues [active] 177437005156 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177437005157 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 177437005158 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177437005159 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 177437005160 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 177437005161 HlyD family secretion protein; Region: HlyD_2; pfam12700 177437005162 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437005163 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437005164 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177437005165 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177437005166 Walker A/P-loop; other site 177437005167 ATP binding site [chemical binding]; other site 177437005168 Q-loop/lid; other site 177437005169 ABC transporter signature motif; other site 177437005170 Walker B; other site 177437005171 D-loop; other site 177437005172 H-loop/switch region; other site 177437005173 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177437005174 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 177437005175 FtsX-like permease family; Region: FtsX; pfam02687 177437005176 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 177437005177 TrkA-N domain; Region: TrkA_N; pfam02254 177437005178 TrkA-C domain; Region: TrkA_C; pfam02080 177437005179 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 177437005180 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 177437005181 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177437005182 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 177437005183 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437005184 Zn2+ binding site [ion binding]; other site 177437005185 Mg2+ binding site [ion binding]; other site 177437005186 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 177437005187 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 177437005188 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 177437005189 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 177437005190 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437005191 ligand binding site [chemical binding]; other site 177437005192 Helix-turn-helix domain; Region: HTH_17; pfam12728 177437005193 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 177437005194 active site 177437005195 phosphorylation site [posttranslational modification] 177437005196 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 177437005197 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 177437005198 Cl- selectivity filter; other site 177437005199 Cl- binding residues [ion binding]; other site 177437005200 pore gating glutamate residue; other site 177437005201 dimer interface [polypeptide binding]; other site 177437005202 FOG: CBS domain [General function prediction only]; Region: COG0517 177437005203 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 177437005204 Transcriptional regulators [Transcription]; Region: MarR; COG1846 177437005205 MarR family; Region: MarR_2; pfam12802 177437005206 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; cl15377 177437005207 Flagellin N-methylase; Region: FliB; pfam03692 177437005208 recombination protein RecR; Reviewed; Region: recR; PRK00076 177437005209 RecR protein; Region: RecR; pfam02132 177437005210 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 177437005211 putative active site [active] 177437005212 putative metal-binding site [ion binding]; other site 177437005213 tetramer interface [polypeptide binding]; other site 177437005214 hypothetical protein; Validated; Region: PRK00153 177437005215 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 177437005216 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 177437005217 Walker A motif; other site 177437005218 ATP binding site [chemical binding]; other site 177437005219 Walker B motif; other site 177437005220 arginine finger; other site 177437005221 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 177437005222 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 177437005223 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 177437005224 S-adenosylmethionine binding site [chemical binding]; other site 177437005225 Protein of unknown function (DUF721); Region: DUF721; pfam05258 177437005226 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 177437005227 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 177437005228 dimer interface [polypeptide binding]; other site 177437005229 acyl-activating enzyme (AAE) consensus motif; other site 177437005230 putative active site [active] 177437005231 AMP binding site [chemical binding]; other site 177437005232 putative CoA binding site [chemical binding]; other site 177437005233 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 177437005234 dimer interface [polypeptide binding]; other site 177437005235 [2Fe-2S] cluster binding site [ion binding]; other site 177437005236 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437005237 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 177437005238 ATP binding site [chemical binding]; other site 177437005239 Mg2+ binding site [ion binding]; other site 177437005240 G-X-G motif; other site 177437005241 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 177437005242 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 177437005243 PHP-associated; Region: PHP_C; pfam13263 177437005244 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 177437005245 4Fe-4S binding domain; Region: Fer4; pfam00037 177437005246 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 177437005247 Putative Fe-S cluster; Region: FeS; cl17515 177437005248 DRTGG domain; Region: DRTGG; pfam07085 177437005249 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 177437005250 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 177437005251 ATP binding site [chemical binding]; other site 177437005252 G-X-G motif; other site 177437005253 DRTGG domain; Region: DRTGG; pfam07085 177437005254 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 177437005255 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437005256 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 177437005257 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 177437005258 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 177437005259 putative dimer interface [polypeptide binding]; other site 177437005260 [2Fe-2S] cluster binding site [ion binding]; other site 177437005261 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 177437005262 dimer interface [polypeptide binding]; other site 177437005263 [2Fe-2S] cluster binding site [ion binding]; other site 177437005264 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 177437005265 SLBB domain; Region: SLBB; pfam10531 177437005266 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 177437005267 4Fe-4S binding domain; Region: Fer4_6; pfam12837 177437005268 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437005269 4Fe-4S binding domain; Region: Fer4; pfam00037 177437005270 Flagellin N-methylase; Region: FliB; pfam03692 177437005271 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 177437005272 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 177437005273 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 177437005274 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 177437005275 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 177437005276 substrate binding pocket [chemical binding]; other site 177437005277 dimer interface [polypeptide binding]; other site 177437005278 inhibitor binding site; inhibition site 177437005279 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional; Region: PRK04165 177437005280 Putative Fe-S cluster; Region: FeS; pfam04060 177437005281 bifunctional acetyl-CoA decarbonylase/synthase complex subunit alpha/beta; Reviewed; Region: PRK09529 177437005282 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 177437005283 ACS interaction site; other site 177437005284 CODH interaction site; other site 177437005285 metal cluster binding site [ion binding]; other site 177437005286 CO dehydrogenase/acetyl-CoA synthase complex beta subunit; Region: CdhC; pfam03598 177437005287 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 177437005288 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 177437005289 ACS interaction site; other site 177437005290 CODH interaction site; other site 177437005291 metal cluster binding site [ion binding]; other site 177437005292 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional; Region: PRK04452 177437005293 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]; Region: MIS1; COG2759 177437005294 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 177437005295 Potassium binding sites [ion binding]; other site 177437005296 Cesium cation binding sites [ion binding]; other site 177437005297 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 177437005298 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 177437005299 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 177437005300 homodimer interface [polypeptide binding]; other site 177437005301 NADP binding site [chemical binding]; other site 177437005302 substrate binding site [chemical binding]; other site 177437005303 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 177437005304 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 177437005305 FAD binding site [chemical binding]; other site 177437005306 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 177437005307 trimerization site [polypeptide binding]; other site 177437005308 active site 177437005309 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 177437005310 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 177437005311 P-loop; other site 177437005312 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 177437005313 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 177437005314 CoA binding domain; Region: CoA_binding_2; pfam13380 177437005315 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 177437005316 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 177437005317 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 177437005318 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 177437005319 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 177437005320 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 177437005321 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 177437005322 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177437005323 active site 177437005324 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 177437005325 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 177437005326 5S rRNA interface [nucleotide binding]; other site 177437005327 CTC domain interface [polypeptide binding]; other site 177437005328 L16 interface [polypeptide binding]; other site 177437005329 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 177437005330 putative active site [active] 177437005331 catalytic residue [active] 177437005332 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 177437005333 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 177437005334 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 177437005335 RNA binding surface [nucleotide binding]; other site 177437005336 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 177437005337 active site 177437005338 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 177437005339 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 177437005340 catalytic loop [active] 177437005341 iron binding site [ion binding]; other site 177437005342 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 177437005343 4Fe-4S binding domain; Region: Fer4; pfam00037 177437005344 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 177437005345 [4Fe-4S] binding site [ion binding]; other site 177437005346 molybdopterin cofactor binding site; other site 177437005347 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 177437005348 molybdopterin cofactor binding site; other site 177437005349 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 177437005350 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 177437005351 Glutamate binding site [chemical binding]; other site 177437005352 NAD binding site [chemical binding]; other site 177437005353 catalytic residues [active] 177437005354 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 177437005355 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 177437005356 catalytic loop [active] 177437005357 iron binding site [ion binding]; other site 177437005358 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 177437005359 4Fe-4S binding domain; Region: Fer4; pfam00037 177437005360 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 177437005361 [4Fe-4S] binding site [ion binding]; other site 177437005362 molybdopterin cofactor binding site; other site 177437005363 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 177437005364 molybdopterin cofactor binding site; other site 177437005365 ferredoxin; Provisional; Region: PRK08764 177437005366 Putative Fe-S cluster; Region: FeS; cl17515 177437005367 4Fe-4S binding domain; Region: Fer4; pfam00037 177437005368 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 177437005369 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177437005370 Response regulator receiver domain; Region: Response_reg; pfam00072 177437005371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437005372 active site 177437005373 phosphorylation site [posttranslational modification] 177437005374 intermolecular recognition site; other site 177437005375 dimerization interface [polypeptide binding]; other site 177437005376 PAS domain S-box; Region: sensory_box; TIGR00229 177437005377 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 177437005378 putative active site [active] 177437005379 heme pocket [chemical binding]; other site 177437005380 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 177437005381 dimer interface [polypeptide binding]; other site 177437005382 phosphorylation site [posttranslational modification] 177437005383 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 177437005384 ATP binding site [chemical binding]; other site 177437005385 Mg2+ binding site [ion binding]; other site 177437005386 G-X-G motif; other site 177437005387 Response regulator receiver domain; Region: Response_reg; pfam00072 177437005388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437005389 active site 177437005390 phosphorylation site [posttranslational modification] 177437005391 intermolecular recognition site; other site 177437005392 dimerization interface [polypeptide binding]; other site 177437005393 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 177437005394 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 177437005395 DHHA2 domain; Region: DHHA2; pfam02833 177437005396 conserved hypothetical protein; Region: MG423; TIGR00649 177437005397 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177437005398 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 177437005399 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 177437005400 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 177437005401 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 177437005402 Methyltransferase domain; Region: Methyltransf_24; pfam13578 177437005403 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 177437005404 dimerization interface [polypeptide binding]; other site 177437005405 putative DNA binding site [nucleotide binding]; other site 177437005406 putative Zn2+ binding site [ion binding]; other site 177437005407 Predicted permeases [General function prediction only]; Region: COG0701 177437005408 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 177437005409 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177437005410 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 177437005411 dimerization interface [polypeptide binding]; other site 177437005412 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437005413 dimer interface [polypeptide binding]; other site 177437005414 putative CheW interface [polypeptide binding]; other site 177437005415 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 177437005416 S-adenosylmethionine binding site [chemical binding]; other site 177437005417 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437005418 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 177437005419 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 177437005420 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177437005421 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177437005422 adenylate kinase; Provisional; Region: PRK14529 177437005423 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 177437005424 AMP-binding site [chemical binding]; other site 177437005425 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 177437005426 transcription termination factor Rho; Provisional; Region: rho; PRK09376 177437005427 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 177437005428 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 177437005429 RNA binding site [nucleotide binding]; other site 177437005430 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 177437005431 multimer interface [polypeptide binding]; other site 177437005432 Walker A motif; other site 177437005433 ATP binding site [chemical binding]; other site 177437005434 Walker B motif; other site 177437005435 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 177437005436 peptide chain release factor 1; Validated; Region: prfA; PRK00591 177437005437 This domain is found in peptide chain release factors; Region: PCRF; smart00937 177437005438 RF-1 domain; Region: RF-1; pfam00472 177437005439 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 177437005440 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 177437005441 S-adenosylmethionine binding site [chemical binding]; other site 177437005442 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 177437005443 rRNA interaction site [nucleotide binding]; other site 177437005444 S8 interaction site; other site 177437005445 putative laminin-1 binding site; other site 177437005446 elongation factor Ts; Reviewed; Region: tsf; PRK12332 177437005447 UBA/TS-N domain; Region: UBA; pfam00627 177437005448 Elongation factor TS; Region: EF_TS; pfam00889 177437005449 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 177437005450 putative nucleotide binding site [chemical binding]; other site 177437005451 uridine monophosphate binding site [chemical binding]; other site 177437005452 homohexameric interface [polypeptide binding]; other site 177437005453 ribosome recycling factor; Reviewed; Region: frr; PRK00083 177437005454 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 177437005455 hinge region; other site 177437005456 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 177437005457 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 177437005458 catalytic residue [active] 177437005459 putative FPP diphosphate binding site; other site 177437005460 putative FPP binding hydrophobic cleft; other site 177437005461 dimer interface [polypeptide binding]; other site 177437005462 putative IPP diphosphate binding site; other site 177437005463 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 177437005464 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 177437005465 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 177437005466 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 177437005467 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 177437005468 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 177437005469 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 177437005470 RIP metalloprotease RseP; Region: TIGR00054 177437005471 active site 177437005472 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 177437005473 protein binding site [polypeptide binding]; other site 177437005474 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 177437005475 putative substrate binding region [chemical binding]; other site 177437005476 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 177437005477 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 177437005478 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 177437005479 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 177437005480 dimerization interface [polypeptide binding]; other site 177437005481 ATP binding site [chemical binding]; other site 177437005482 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 177437005483 dimerization interface [polypeptide binding]; other site 177437005484 ATP binding site [chemical binding]; other site 177437005485 CobB/CobQ-like glutamine amidotransferase domain; Region: GATase_5; pfam13507 177437005486 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 177437005487 putative active site [active] 177437005488 catalytic triad [active] 177437005489 Protein of unknown function (DUF867); Region: DUF867; pfam05908 177437005490 Protein of unknown function (DUF867); Region: DUF867; pfam05908 177437005491 putative acetyltransferase; Provisional; Region: PRK03624 177437005492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437005493 Coenzyme A binding pocket [chemical binding]; other site 177437005494 Bacterial Ig-like domain; Region: Big_5; pfam13205 177437005495 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 177437005496 MG2 domain; Region: A2M_N; pfam01835 177437005497 Alpha-2-macroglobulin family; Region: A2M; pfam00207 177437005498 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 177437005499 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 177437005500 Transglycosylase; Region: Transgly; pfam00912 177437005501 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 177437005502 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177437005503 PAS domain; Region: PAS; smart00091 177437005504 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437005505 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 177437005506 dimer interface [polypeptide binding]; other site 177437005507 phosphorylation site [posttranslational modification] 177437005508 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 177437005509 ATP binding site [chemical binding]; other site 177437005510 Mg2+ binding site [ion binding]; other site 177437005511 G-X-G motif; other site 177437005512 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 177437005513 Transposase [DNA replication, recombination, and repair]; Region: COG5421 177437005514 PEP-CTERM motif; Region: VPEP; pfam07589 177437005515 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 177437005516 Endonuclease I; Region: Endonuclease_1; pfam04231 177437005517 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 177437005518 active site 177437005519 DNA binding site [nucleotide binding] 177437005520 Int/Topo IB signature motif; other site 177437005521 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 177437005522 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 177437005523 potential protein location (hypothetical protein HRM2_17400 [Desulfobacterium autotrophicum HRM2]) that overlaps RNA (tRNA-R) 177437005524 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 177437005525 nucleoside/Zn binding site; other site 177437005526 dimer interface [polypeptide binding]; other site 177437005527 catalytic motif [active] 177437005528 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 177437005529 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 177437005530 GDP-binding site [chemical binding]; other site 177437005531 ACT binding site; other site 177437005532 IMP binding site; other site 177437005533 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 177437005534 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177437005535 putative active site [active] 177437005536 heme pocket [chemical binding]; other site 177437005537 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 177437005538 putative active site [active] 177437005539 heme pocket [chemical binding]; other site 177437005540 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437005541 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437005542 metal binding site [ion binding]; metal-binding site 177437005543 active site 177437005544 I-site; other site 177437005545 DsrE/DsrF-like family; Region: DrsE; cl00672 177437005546 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 177437005547 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 177437005548 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 177437005549 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177437005550 Domain of unknown function DUF21; Region: DUF21; pfam01595 177437005551 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 177437005552 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437005553 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437005554 active site 177437005555 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 177437005556 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 177437005557 Ion channel; Region: Ion_trans_2; pfam07885 177437005558 TrkA-N domain; Region: TrkA_N; pfam02254 177437005559 Calcium-activated BK potassium channel alpha subunit; Region: BK_channel_a; pfam03493 177437005560 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 177437005561 active site 177437005562 trimerization site [polypeptide binding]; other site 177437005563 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437005564 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437005565 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 177437005566 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437005567 Walker A/P-loop; other site 177437005568 ATP binding site [chemical binding]; other site 177437005569 Q-loop/lid; other site 177437005570 ABC transporter signature motif; other site 177437005571 Walker B; other site 177437005572 D-loop; other site 177437005573 H-loop/switch region; other site 177437005574 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 177437005575 dimer interface [polypeptide binding]; other site 177437005576 conserved gate region; other site 177437005577 putative PBP binding loops; other site 177437005578 ABC-ATPase subunit interface; other site 177437005579 PBP superfamily domain; Region: PBP_like_2; pfam12849 177437005580 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 177437005581 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 177437005582 active site 177437005583 metal binding site [ion binding]; metal-binding site 177437005584 homotetramer interface [polypeptide binding]; other site 177437005585 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 177437005586 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 177437005587 Uncharacterized conserved protein [Function unknown]; Region: COG1262 177437005588 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 177437005589 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177437005590 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 177437005591 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 177437005592 active site 177437005593 ribulose/triose binding site [chemical binding]; other site 177437005594 phosphate binding site [ion binding]; other site 177437005595 substrate (anthranilate) binding pocket [chemical binding]; other site 177437005596 product (indole) binding pocket [chemical binding]; other site 177437005597 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 177437005598 active site 177437005599 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 177437005600 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 177437005601 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 177437005602 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 177437005603 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 177437005604 glutamine binding [chemical binding]; other site 177437005605 catalytic triad [active] 177437005606 anthranilate synthase component I; Provisional; Region: PRK13565 177437005607 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 177437005608 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 177437005609 B12 binding domain; Region: B12-binding; pfam02310 177437005610 B12 binding site [chemical binding]; other site 177437005611 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177437005612 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 177437005613 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 177437005614 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 177437005615 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 177437005616 dimer interface [polypeptide binding]; other site 177437005617 active site residues [active] 177437005618 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 177437005619 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 177437005620 hypothetical protein; Provisional; Region: PRK13665 177437005621 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 177437005622 dimer interface [polypeptide binding]; other site 177437005623 ADP-ribose binding site [chemical binding]; other site 177437005624 active site 177437005625 nudix motif; other site 177437005626 metal binding site [ion binding]; metal-binding site 177437005627 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 177437005628 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 177437005629 TPR repeat; Region: TPR_11; pfam13414 177437005630 ATP synthase subunit C; Region: ATP-synt_C; cl00466 177437005631 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 177437005632 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 177437005633 ATP synthase I chain; Region: ATP_synt_I; pfam03899 177437005634 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 177437005635 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 177437005636 dimerization interface [polypeptide binding]; other site 177437005637 putative ATP binding site [chemical binding]; other site 177437005638 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 177437005639 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 177437005640 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 177437005641 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 177437005642 active site 177437005643 nucleotide binding site [chemical binding]; other site 177437005644 HIGH motif; other site 177437005645 KMSKS motif; other site 177437005646 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 177437005647 multiple promoter invertase; Provisional; Region: mpi; PRK13413 177437005648 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 177437005649 catalytic residues [active] 177437005650 catalytic nucleophile [active] 177437005651 Presynaptic Site I dimer interface [polypeptide binding]; other site 177437005652 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 177437005653 Synaptic Flat tetramer interface [polypeptide binding]; other site 177437005654 Synaptic Site I dimer interface [polypeptide binding]; other site 177437005655 DNA binding site [nucleotide binding] 177437005656 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 177437005657 DNA-binding interface [nucleotide binding]; DNA binding site 177437005658 integrase; Provisional; Region: int; PHA02601 177437005659 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 177437005660 active site 177437005661 DNA binding site [nucleotide binding] 177437005662 Int/Topo IB signature motif; other site 177437005663 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 177437005664 DEAD-like helicases superfamily; Region: DEXDc; smart00487 177437005665 ATP binding site [chemical binding]; other site 177437005666 Mg++ binding site [ion binding]; other site 177437005667 motif III; other site 177437005668 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 177437005669 nucleotide binding region [chemical binding]; other site 177437005670 ATP-binding site [chemical binding]; other site 177437005671 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 177437005672 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 177437005673 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 177437005674 Ligand Binding Site [chemical binding]; other site 177437005675 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 177437005676 active site 177437005677 multimer interface [polypeptide binding]; other site 177437005678 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 177437005679 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 177437005680 substrate binding site [chemical binding]; other site 177437005681 ligand binding site [chemical binding]; other site 177437005682 3-isopropylmalate dehydratase small subunit [Amino acid transport and metabolism]; Region: LeuD; COG0066 177437005683 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 177437005684 substrate binding site [chemical binding]; other site 177437005685 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 177437005686 Thiamine pyrophosphokinase; Region: TPK; cd07995 177437005687 active site 177437005688 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 177437005689 dimerization interface [polypeptide binding]; other site 177437005690 thiamine binding site [chemical binding]; other site 177437005691 Predicted permeases [General function prediction only]; Region: COG0795 177437005692 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 177437005693 Predicted permeases [General function prediction only]; Region: COG0795 177437005694 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 177437005695 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 177437005696 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 177437005697 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 177437005698 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 177437005699 putative acyl-acceptor binding pocket; other site 177437005700 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 177437005701 putative metal binding site; other site 177437005702 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 177437005703 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177437005704 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 177437005705 FeS/SAM binding site; other site 177437005706 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 177437005707 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437005708 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 177437005709 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177437005710 active site 177437005711 nucleotide binding site [chemical binding]; other site 177437005712 HIGH motif; other site 177437005713 KMSKS motif; other site 177437005714 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 177437005715 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 177437005716 O-Antigen ligase; Region: Wzy_C; pfam04932 177437005717 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 177437005718 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 177437005719 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 177437005720 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 177437005721 Ligand binding site; other site 177437005722 oligomer interface; other site 177437005723 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 177437005724 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 177437005725 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 177437005726 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177437005727 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 177437005728 Walker A/P-loop; other site 177437005729 ATP binding site [chemical binding]; other site 177437005730 Q-loop/lid; other site 177437005731 ABC transporter signature motif; other site 177437005732 Walker B; other site 177437005733 D-loop; other site 177437005734 H-loop/switch region; other site 177437005735 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 177437005736 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 177437005737 putative active site [active] 177437005738 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 177437005739 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 177437005740 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 177437005741 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 177437005742 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 177437005743 Ligand binding site; other site 177437005744 Putative Catalytic site; other site 177437005745 DXD motif; other site 177437005746 glycerol kinase; Provisional; Region: glpK; PRK00047 177437005747 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 177437005748 N- and C-terminal domain interface [polypeptide binding]; other site 177437005749 active site 177437005750 MgATP binding site [chemical binding]; other site 177437005751 catalytic site [active] 177437005752 metal binding site [ion binding]; metal-binding site 177437005753 putative homotetramer interface [polypeptide binding]; other site 177437005754 glycerol binding site [chemical binding]; other site 177437005755 homodimer interface [polypeptide binding]; other site 177437005756 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 177437005757 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 177437005758 Walker A/P-loop; other site 177437005759 ATP binding site [chemical binding]; other site 177437005760 Q-loop/lid; other site 177437005761 ABC transporter signature motif; other site 177437005762 Walker B; other site 177437005763 D-loop; other site 177437005764 H-loop/switch region; other site 177437005765 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 177437005766 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 177437005767 Walker A/P-loop; other site 177437005768 ATP binding site [chemical binding]; other site 177437005769 Q-loop/lid; other site 177437005770 ABC transporter signature motif; other site 177437005771 Walker B; other site 177437005772 D-loop; other site 177437005773 H-loop/switch region; other site 177437005774 TOBE domain; Region: TOBE; pfam03459 177437005775 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 177437005776 dimer interface [polypeptide binding]; other site 177437005777 conserved gate region; other site 177437005778 putative PBP binding loops; other site 177437005779 ABC-ATPase subunit interface; other site 177437005780 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 177437005781 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 177437005782 dimer interface [polypeptide binding]; other site 177437005783 conserved gate region; other site 177437005784 ABC-ATPase subunit interface; other site 177437005785 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 177437005786 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 177437005787 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 177437005788 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 177437005789 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 177437005790 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 177437005791 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 177437005792 Uncharacterized conserved protein [Function unknown]; Region: COG2835 177437005793 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 177437005794 hypothetical protein; Provisional; Region: PRK11820 177437005795 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 177437005796 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 177437005797 hypothetical protein; Provisional; Region: PRK04323 177437005798 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 177437005799 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 177437005800 catalytic site [active] 177437005801 G-X2-G-X-G-K; other site 177437005802 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 177437005803 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 177437005804 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 177437005805 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 177437005806 isocitrate dehydrogenase; Validated; Region: PRK06451 177437005807 comF family protein; Region: comF; TIGR00201 177437005808 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177437005809 active site 177437005810 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 177437005811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437005812 NAD(P) binding site [chemical binding]; other site 177437005813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437005814 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 177437005815 active site 177437005816 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 177437005817 active site 1 [active] 177437005818 dimer interface [polypeptide binding]; other site 177437005819 hexamer interface [polypeptide binding]; other site 177437005820 active site 2 [active] 177437005821 Fic family protein [Function unknown]; Region: COG3177 177437005822 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 177437005823 Fic/DOC family; Region: Fic; pfam02661 177437005824 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 177437005825 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 177437005826 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 177437005827 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 177437005828 RNA binding site [nucleotide binding]; other site 177437005829 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 177437005830 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 177437005831 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 177437005832 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 177437005833 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 177437005834 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 177437005835 DnaA N-terminal domain; Region: DnaA_N; pfam11638 177437005836 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 177437005837 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 177437005838 Walker A motif; other site 177437005839 ATP binding site [chemical binding]; other site 177437005840 Walker B motif; other site 177437005841 arginine finger; other site 177437005842 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 177437005843 DnaA box-binding interface [nucleotide binding]; other site 177437005844 FAD binding domain; Region: FAD_binding_4; pfam01565 177437005845 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 177437005846 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 177437005847 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 177437005848 HflX GTPase family; Region: HflX; cd01878 177437005849 G1 box; other site 177437005850 GTP/Mg2+ binding site [chemical binding]; other site 177437005851 Switch I region; other site 177437005852 G2 box; other site 177437005853 G3 box; other site 177437005854 Switch II region; other site 177437005855 G4 box; other site 177437005856 G5 box; other site 177437005857 replicative DNA helicase; Region: DnaB; TIGR00665 177437005858 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 177437005859 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 177437005860 Walker A motif; other site 177437005861 ATP binding site [chemical binding]; other site 177437005862 Walker B motif; other site 177437005863 DNA binding loops [nucleotide binding] 177437005864 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 177437005865 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 177437005866 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 177437005867 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 177437005868 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 177437005869 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 177437005870 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177437005871 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 177437005872 ABC transporter; Region: ABC_tran_2; pfam12848 177437005873 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177437005874 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 177437005875 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437005876 active site 177437005877 phosphorylation site [posttranslational modification] 177437005878 intermolecular recognition site; other site 177437005879 dimerization interface [polypeptide binding]; other site 177437005880 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 177437005881 DNA binding site [nucleotide binding] 177437005882 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 177437005883 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 177437005884 dimerization interface [polypeptide binding]; other site 177437005885 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 177437005886 dimer interface [polypeptide binding]; other site 177437005887 phosphorylation site [posttranslational modification] 177437005888 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 177437005889 ATP binding site [chemical binding]; other site 177437005890 Mg2+ binding site [ion binding]; other site 177437005891 G-X-G motif; other site 177437005892 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 177437005893 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 177437005894 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 177437005895 protein binding site [polypeptide binding]; other site 177437005896 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 177437005897 protein binding site [polypeptide binding]; other site 177437005898 SurA N-terminal domain; Region: SurA_N_3; cl07813 177437005899 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 177437005900 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 177437005901 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 177437005902 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 177437005903 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 177437005904 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 177437005905 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 177437005906 PilZ domain; Region: PilZ; pfam07238 177437005907 Asparaginase; Region: Asparaginase; pfam00710 177437005908 active site 177437005909 RecX family; Region: RecX; cl00936 177437005910 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 177437005911 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 177437005912 active site 177437005913 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 177437005914 active site 177437005915 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 177437005916 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 177437005917 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 177437005918 carboxy-terminal protease; Provisional; Region: PRK11186 177437005919 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 177437005920 protein binding site [polypeptide binding]; other site 177437005921 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 177437005922 Catalytic dyad [active] 177437005923 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 177437005924 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 177437005925 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 177437005926 GTP/Mg2+ binding site [chemical binding]; other site 177437005927 G4 box; other site 177437005928 G5 box; other site 177437005929 G1 box; other site 177437005930 Switch I region; other site 177437005931 G2 box; other site 177437005932 G3 box; other site 177437005933 Switch II region; other site 177437005934 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 177437005935 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177437005936 catalytic residue [active] 177437005937 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177437005938 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 177437005939 GMP synthase; Reviewed; Region: guaA; PRK00074 177437005940 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 177437005941 AMP/PPi binding site [chemical binding]; other site 177437005942 candidate oxyanion hole; other site 177437005943 catalytic triad [active] 177437005944 potential glutamine specificity residues [chemical binding]; other site 177437005945 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 177437005946 ATP Binding subdomain [chemical binding]; other site 177437005947 Ligand Binding sites [chemical binding]; other site 177437005948 Dimerization subdomain; other site 177437005949 elongation factor P; Validated; Region: PRK00529 177437005950 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 177437005951 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 177437005952 RNA binding site [nucleotide binding]; other site 177437005953 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 177437005954 RNA binding site [nucleotide binding]; other site 177437005955 Response regulator receiver domain; Region: Response_reg; pfam00072 177437005956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437005957 active site 177437005958 phosphorylation site [posttranslational modification] 177437005959 intermolecular recognition site; other site 177437005960 dimerization interface [polypeptide binding]; other site 177437005961 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437005962 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 177437005963 dimer interface [polypeptide binding]; other site 177437005964 phosphorylation site [posttranslational modification] 177437005965 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 177437005966 ATP binding site [chemical binding]; other site 177437005967 Mg2+ binding site [ion binding]; other site 177437005968 G-X-G motif; other site 177437005969 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437005970 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 177437005971 active site 177437005972 phosphorylation site [posttranslational modification] 177437005973 intermolecular recognition site; other site 177437005974 dimerization interface [polypeptide binding]; other site 177437005975 Response regulator receiver domain; Region: Response_reg; pfam00072 177437005976 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437005977 active site 177437005978 phosphorylation site [posttranslational modification] 177437005979 intermolecular recognition site; other site 177437005980 dimerization interface [polypeptide binding]; other site 177437005981 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 177437005982 putative acyl-acceptor binding pocket; other site 177437005983 ResB-like family; Region: ResB; pfam05140 177437005984 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 177437005985 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 177437005986 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 177437005987 heme-binding residues [chemical binding]; other site 177437005988 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 177437005989 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 177437005990 molybdopterin cofactor binding site; other site 177437005991 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 177437005992 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 177437005993 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 177437005994 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 177437005995 Predicted phosphoesterase (MutT family) [General function prediction only]; Region: COG4112 177437005996 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 177437005997 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 177437005998 active site 177437005999 catalytic site [active] 177437006000 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 177437006001 dimerization domain swap beta strand [polypeptide binding]; other site 177437006002 regulatory protein interface [polypeptide binding]; other site 177437006003 active site 177437006004 regulatory phosphorylation site [posttranslational modification]; other site 177437006005 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 177437006006 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 177437006007 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 177437006008 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 177437006009 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 177437006010 SmpB-tmRNA interface; other site 177437006011 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 177437006012 Helix-turn-helix domain; Region: HTH_17; pfam12728 177437006013 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 177437006014 active site 177437006015 DNA binding site [nucleotide binding] 177437006016 Int/Topo IB signature motif; other site 177437006017 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 177437006018 IHF - DNA interface [nucleotide binding]; other site 177437006019 IHF dimer interface [polypeptide binding]; other site 177437006020 TIR domain; Region: TIR_2; pfam13676 177437006021 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 177437006022 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 177437006023 putative active site [active] 177437006024 putative NTP binding site [chemical binding]; other site 177437006025 putative nucleic acid binding site [nucleotide binding]; other site 177437006026 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 177437006027 non-specific DNA binding site [nucleotide binding]; other site 177437006028 salt bridge; other site 177437006029 sequence-specific DNA binding site [nucleotide binding]; other site 177437006030 ParB-like nuclease domain; Region: ParBc; cl02129 177437006031 KorB domain; Region: KorB; pfam08535 177437006032 Helix-turn-helix domain; Region: HTH_38; pfam13936 177437006033 transposase; Provisional; Region: PRK06526 177437006034 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 177437006035 Walker A motif; other site 177437006036 ATP binding site [chemical binding]; other site 177437006037 Walker B motif; other site 177437006038 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437006039 Integrase core domain; Region: rve; pfam00665 177437006040 AAA domain; Region: AAA_22; pfam13401 177437006041 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 177437006042 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 177437006043 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 177437006044 DNA binding residues [nucleotide binding] 177437006045 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 177437006046 cyclase homology domain; Region: CHD; cd07302 177437006047 nucleotidyl binding site; other site 177437006048 metal binding site [ion binding]; metal-binding site 177437006049 dimer interface [polypeptide binding]; other site 177437006050 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 177437006051 MPN+ (JAMM) motif; other site 177437006052 Zinc-binding site [ion binding]; other site 177437006053 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 177437006054 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 177437006055 HsdM N-terminal domain; Region: HsdM_N; pfam12161 177437006056 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 177437006057 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 177437006058 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 177437006059 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 177437006060 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 177437006061 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 177437006062 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 177437006063 ATP binding site [chemical binding]; other site 177437006064 putative Mg++ binding site [ion binding]; other site 177437006065 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 177437006066 Protein of unknown function DUF45; Region: DUF45; pfam01863 177437006067 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177437006068 PEP-CTERM motif; Region: VPEP; pfam07589 177437006069 TPR repeat; Region: TPR_11; pfam13414 177437006070 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 177437006071 binding surface 177437006072 TPR motif; other site 177437006073 TPR repeat; Region: TPR_11; pfam13414 177437006074 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 177437006075 binding surface 177437006076 TPR motif; other site 177437006077 TPR repeat; Region: TPR_11; pfam13414 177437006078 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 177437006079 binding surface 177437006080 TPR motif; other site 177437006081 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 177437006082 binding surface 177437006083 TPR motif; other site 177437006084 TPR repeat; Region: TPR_11; pfam13414 177437006085 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 177437006086 binding surface 177437006087 TPR motif; other site 177437006088 TPR repeat; Region: TPR_11; pfam13414 177437006089 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 177437006090 binding surface 177437006091 TPR motif; other site 177437006092 TPR repeat; Region: TPR_11; pfam13414 177437006093 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437006094 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437006095 active site 177437006096 phosphorylation site [posttranslational modification] 177437006097 intermolecular recognition site; other site 177437006098 dimerization interface [polypeptide binding]; other site 177437006099 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 177437006100 Walker A motif; other site 177437006101 ATP binding site [chemical binding]; other site 177437006102 Walker B motif; other site 177437006103 arginine finger; other site 177437006104 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437006105 PAS domain; Region: PAS_9; pfam13426 177437006106 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 177437006107 ATP binding site [chemical binding]; other site 177437006108 Mg2+ binding site [ion binding]; other site 177437006109 G-X-G motif; other site 177437006110 RF-1 domain; Region: RF-1; pfam00472 177437006111 PEP synthetase regulatory protein; Provisional; Region: PRK05339 177437006112 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 177437006113 Response regulator receiver domain; Region: Response_reg; pfam00072 177437006114 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437006115 active site 177437006116 intermolecular recognition site; other site 177437006117 dimerization interface [polypeptide binding]; other site 177437006118 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 177437006119 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 177437006120 Chain length determinant protein; Region: Wzz; cl15801 177437006121 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 177437006122 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 177437006123 Bacterial sugar transferase; Region: Bac_transf; pfam02397 177437006124 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 177437006125 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 177437006126 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 177437006127 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 177437006128 Putative transposase; Region: Y2_Tnp; pfam04986 177437006129 potential frameshift: common BLAST hit: gi|91792496|ref|YP_562147.1| phage integrase 177437006130 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 177437006131 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 177437006132 active site 177437006133 Int/Topo IB signature motif; other site 177437006134 DNA binding site [nucleotide binding] 177437006135 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 177437006136 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 177437006137 active site 177437006138 NTP binding site [chemical binding]; other site 177437006139 metal binding triad [ion binding]; metal-binding site 177437006140 antibiotic binding site [chemical binding]; other site 177437006141 Protein of unknown function DUF86; Region: DUF86; pfam01934 177437006142 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 177437006143 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 177437006144 oligomeric interface; other site 177437006145 putative active site [active] 177437006146 homodimer interface [polypeptide binding]; other site 177437006147 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 177437006148 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 177437006149 putative active site [active] 177437006150 putative catalytic site [active] 177437006151 CAAX protease self-immunity; Region: Abi; cl00558 177437006152 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 177437006153 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 177437006154 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 177437006155 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: GT1_like_1; cd04950 177437006156 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437006157 putative homodimer interface [polypeptide binding]; other site 177437006158 Acyltransferase family; Region: Acyl_transf_3; pfam01757 177437006159 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 177437006160 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 177437006161 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 177437006162 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 177437006163 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 177437006164 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 177437006165 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 177437006166 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 177437006167 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 177437006168 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437006169 O-Antigen ligase; Region: Wzy_C; cl04850 177437006170 O-Antigen ligase; Region: Wzy_C; cl04850 177437006171 TPR repeat; Region: TPR_11; pfam13414 177437006172 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 177437006173 TPR motif; other site 177437006174 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437006175 binding surface 177437006176 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437006177 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 177437006178 putative ADP-binding pocket [chemical binding]; other site 177437006179 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 177437006180 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437006181 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 177437006182 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u9; cd10933 177437006183 putative active site [active] 177437006184 putative catalytic site [active] 177437006185 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 177437006186 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 177437006187 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437006188 active site 177437006189 AMP binding site [chemical binding]; other site 177437006190 acyl-activating enzyme (AAE) consensus motif; other site 177437006191 CoA binding site [chemical binding]; other site 177437006192 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA; cl01007 177437006193 SxDxEG motif; other site 177437006194 active site 177437006195 metal binding site [ion binding]; metal-binding site 177437006196 homopentamer interface [polypeptide binding]; other site 177437006197 TIGR03790 family protein; Region: TIGR03790 177437006198 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 177437006199 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 177437006200 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 177437006201 putative active site [active] 177437006202 putative metal binding site [ion binding]; other site 177437006203 Right handed beta helix region; Region: Beta_helix; pfam13229 177437006204 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 177437006205 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 177437006206 catalytic residue [active] 177437006207 Transposase; Region: HTH_Tnp_1; cl17663 177437006208 HTH-like domain; Region: HTH_21; pfam13276 177437006209 Integrase core domain; Region: rve; pfam00665 177437006210 DDE domain; Region: DDE_Tnp_IS240; pfam13610 177437006211 Integrase core domain; Region: rve_3; pfam13683 177437006212 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 177437006213 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 177437006214 dimer interface [polypeptide binding]; other site 177437006215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437006216 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 177437006217 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177437006218 active site 177437006219 HIGH motif; other site 177437006220 nucleotide binding site [chemical binding]; other site 177437006221 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177437006222 active site 177437006223 KMSKS motif; other site 177437006224 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 177437006225 tRNA binding surface [nucleotide binding]; other site 177437006226 anticodon binding site; other site 177437006227 Predicted integral membrane protein [Function unknown]; Region: COG5652 177437006228 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 177437006229 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177437006230 Beta-Casp domain; Region: Beta-Casp; smart01027 177437006231 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 177437006232 hypothetical protein; Provisional; Region: PRK14852 177437006233 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 177437006234 hypothetical protein; Provisional; Region: PRK14851 177437006235 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 177437006236 ATP binding site [chemical binding]; other site 177437006237 substrate interface [chemical binding]; other site 177437006238 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 177437006239 FMN binding site [chemical binding]; other site 177437006240 dimer interface [polypeptide binding]; other site 177437006241 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177437006242 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177437006243 Walker A/P-loop; other site 177437006244 ATP binding site [chemical binding]; other site 177437006245 Q-loop/lid; other site 177437006246 ABC transporter signature motif; other site 177437006247 Walker B; other site 177437006248 D-loop; other site 177437006249 H-loop/switch region; other site 177437006250 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177437006251 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 177437006252 FtsX-like permease family; Region: FtsX; pfam02687 177437006253 AMIN domain; Region: AMIN; pfam11741 177437006254 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 177437006255 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 177437006256 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 177437006257 PEP-CTERM motif; Region: VPEP; pfam07589 177437006258 Winged helix-turn helix; Region: HTH_29; pfam13551 177437006259 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177437006260 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 177437006261 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 177437006262 binding surface 177437006263 TPR motif; other site 177437006264 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 177437006265 binding surface 177437006266 TPR motif; other site 177437006267 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437006268 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 177437006269 TPR motif; other site 177437006270 binding surface 177437006271 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 177437006272 binding surface 177437006273 TPR motif; other site 177437006274 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 177437006275 binding surface 177437006276 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437006277 TPR motif; other site 177437006278 TPR repeat; Region: TPR_11; pfam13414 177437006279 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 177437006280 binding surface 177437006281 TPR motif; other site 177437006282 TPR repeat; Region: TPR_11; pfam13414 177437006283 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 177437006284 TPR motif; other site 177437006285 binding surface 177437006286 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437006287 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 177437006288 TPR motif; other site 177437006289 binding surface 177437006290 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437006291 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 177437006292 binding surface 177437006293 TPR motif; other site 177437006294 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437006295 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 177437006296 TPR motif; other site 177437006297 binding surface 177437006298 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 177437006299 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 177437006300 binding surface 177437006301 TPR motif; other site 177437006302 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 177437006303 binding surface 177437006304 TPR motif; other site 177437006305 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 177437006306 binding surface 177437006307 TPR motif; other site 177437006308 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 177437006309 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 177437006310 dimerization interface [polypeptide binding]; other site 177437006311 ligand binding site [chemical binding]; other site 177437006312 NADP binding site [chemical binding]; other site 177437006313 catalytic site [active] 177437006314 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177437006315 EamA-like transporter family; Region: EamA; pfam00892 177437006316 EamA-like transporter family; Region: EamA; pfam00892 177437006317 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 177437006318 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 177437006319 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 177437006320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437006321 homodimer interface [polypeptide binding]; other site 177437006322 catalytic residue [active] 177437006323 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 177437006324 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437006325 substrate binding pocket [chemical binding]; other site 177437006326 membrane-bound complex binding site; other site 177437006327 hinge residues; other site 177437006328 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177437006329 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 177437006330 dimer interface [polypeptide binding]; other site 177437006331 conserved gate region; other site 177437006332 putative PBP binding loops; other site 177437006333 ABC-ATPase subunit interface; other site 177437006334 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177437006335 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177437006336 Walker A/P-loop; other site 177437006337 ATP binding site [chemical binding]; other site 177437006338 Q-loop/lid; other site 177437006339 ABC transporter signature motif; other site 177437006340 Walker B; other site 177437006341 D-loop; other site 177437006342 H-loop/switch region; other site 177437006343 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 177437006344 dimer interface [polypeptide binding]; other site 177437006345 conserved gate region; other site 177437006346 putative PBP binding loops; other site 177437006347 ABC-ATPase subunit interface; other site 177437006348 FAD binding domain; Region: FAD_binding_4; pfam01565 177437006349 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 177437006350 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437006351 Cysteine-rich domain; Region: CCG; pfam02754 177437006352 Cysteine-rich domain; Region: CCG; pfam02754 177437006353 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 177437006354 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 177437006355 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437006356 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 177437006357 acyl-activating enzyme (AAE) consensus motif; other site 177437006358 putative AMP binding site [chemical binding]; other site 177437006359 putative active site [active] 177437006360 putative CoA binding site [chemical binding]; other site 177437006361 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 177437006362 PAS domain; Region: PAS_9; pfam13426 177437006363 putative active site [active] 177437006364 heme pocket [chemical binding]; other site 177437006365 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437006366 Zn2+ binding site [ion binding]; other site 177437006367 Mg2+ binding site [ion binding]; other site 177437006368 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 177437006369 ligand binding site [chemical binding]; other site 177437006370 flexible hinge region; other site 177437006371 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 177437006372 S-adenosylmethionine binding site [chemical binding]; other site 177437006373 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 177437006374 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 177437006375 inhibitor-cofactor binding pocket; inhibition site 177437006376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437006377 catalytic residue [active] 177437006378 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 177437006379 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 177437006380 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177437006381 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177437006382 Hemerythrin; Region: Hemerythrin; cd12107 177437006383 Fe binding site [ion binding]; other site 177437006384 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 177437006385 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 177437006386 ATP binding site [chemical binding]; other site 177437006387 putative Mg++ binding site [ion binding]; other site 177437006388 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 177437006389 nucleotide binding region [chemical binding]; other site 177437006390 ATP-binding site [chemical binding]; other site 177437006391 HDOD domain; Region: HDOD; pfam08668 177437006392 hypothetical protein; Provisional; Region: PRK14852 177437006393 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437006394 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437006395 active site 177437006396 phosphorylation site [posttranslational modification] 177437006397 intermolecular recognition site; other site 177437006398 dimerization interface [polypeptide binding]; other site 177437006399 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 177437006400 Walker A motif; other site 177437006401 ATP binding site [chemical binding]; other site 177437006402 Walker B motif; other site 177437006403 arginine finger; other site 177437006404 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 177437006405 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 177437006406 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 177437006407 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437006408 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 177437006409 dimerization interface [polypeptide binding]; other site 177437006410 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 177437006411 dimer interface [polypeptide binding]; other site 177437006412 phosphorylation site [posttranslational modification] 177437006413 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 177437006414 ATP binding site [chemical binding]; other site 177437006415 Mg2+ binding site [ion binding]; other site 177437006416 G-X-G motif; other site 177437006417 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 177437006418 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 177437006419 T5orf172 domain; Region: T5orf172; pfam10544 177437006420 DEAD-like helicases superfamily; Region: DEXDc; smart00487 177437006421 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 177437006422 ATP binding site [chemical binding]; other site 177437006423 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 177437006424 putative Mg++ binding site [ion binding]; other site 177437006425 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 177437006426 Methyltransferase domain; Region: Methyltransf_26; pfam13659 177437006427 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 177437006428 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 177437006429 MPN+ (JAMM) motif; other site 177437006430 Zinc-binding site [ion binding]; other site 177437006431 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437006432 Integrase core domain; Region: rve; pfam00665 177437006433 AAA domain; Region: AAA_22; pfam13401 177437006434 TPR repeat; Region: TPR_11; pfam13414 177437006435 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 177437006436 binding surface 177437006437 TPR motif; other site 177437006438 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 177437006439 binding surface 177437006440 TPR motif; other site 177437006441 TPR repeat; Region: TPR_11; pfam13414 177437006442 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 177437006443 binding surface 177437006444 TPR motif; other site 177437006445 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437006446 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 177437006447 binding surface 177437006448 TPR motif; other site 177437006449 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 177437006450 binding surface 177437006451 TPR repeat; Region: TPR_11; pfam13414 177437006452 TPR motif; other site 177437006453 TPR repeat; Region: TPR_11; pfam13414 177437006454 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 177437006455 TPR motif; other site 177437006456 binding surface 177437006457 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437006458 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 177437006459 TPR motif; other site 177437006460 binding surface 177437006461 PEP-CTERM motif; Region: VPEP; pfam07589 177437006462 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 177437006463 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 177437006464 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 177437006465 DNA binding residues [nucleotide binding] 177437006466 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 177437006467 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 177437006468 Walker A motif; other site 177437006469 ATP binding site [chemical binding]; other site 177437006470 Walker B motif; other site 177437006471 arginine finger; other site 177437006472 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 177437006473 ParB-like nuclease domain; Region: ParBc; pfam02195 177437006474 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 177437006475 DNA methylase; Region: N6_N4_Mtase; pfam01555 177437006476 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 177437006477 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 177437006478 active site 177437006479 catalytic residues [active] 177437006480 DNA binding site [nucleotide binding] 177437006481 Int/Topo IB signature motif; other site 177437006482 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 177437006483 RNA methyltransferase, RsmE family; Region: TIGR00046 177437006484 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 177437006485 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 177437006486 HIGH motif; other site 177437006487 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 177437006488 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 177437006489 active site 177437006490 KMSKS motif; other site 177437006491 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 177437006492 tRNA binding surface [nucleotide binding]; other site 177437006493 anticodon binding site; other site 177437006494 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 177437006495 Response regulator receiver domain; Region: Response_reg; pfam00072 177437006496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437006497 active site 177437006498 phosphorylation site [posttranslational modification] 177437006499 intermolecular recognition site; other site 177437006500 dimerization interface [polypeptide binding]; other site 177437006501 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437006502 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437006503 metal binding site [ion binding]; metal-binding site 177437006504 active site 177437006505 I-site; other site 177437006506 GTP-binding protein LepA; Provisional; Region: PRK05433 177437006507 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 177437006508 G1 box; other site 177437006509 putative GEF interaction site [polypeptide binding]; other site 177437006510 GTP/Mg2+ binding site [chemical binding]; other site 177437006511 Switch I region; other site 177437006512 G2 box; other site 177437006513 G3 box; other site 177437006514 Switch II region; other site 177437006515 G4 box; other site 177437006516 G5 box; other site 177437006517 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 177437006518 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 177437006519 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 177437006520 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 177437006521 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 177437006522 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 177437006523 DctM-like transporters; Region: DctM; pfam06808 177437006524 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 177437006525 Ligand Binding Site [chemical binding]; other site 177437006526 2-isopropylmalate synthase; Validated; Region: PRK00915 177437006527 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 177437006528 active site 177437006529 catalytic residues [active] 177437006530 metal binding site [ion binding]; metal-binding site 177437006531 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 177437006532 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 177437006533 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 177437006534 active site 177437006535 catalytic residues [active] 177437006536 metal binding site [ion binding]; metal-binding site 177437006537 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 177437006538 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 177437006539 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 177437006540 putative valine binding site [chemical binding]; other site 177437006541 dimer interface [polypeptide binding]; other site 177437006542 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 177437006543 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 177437006544 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 177437006545 PYR/PP interface [polypeptide binding]; other site 177437006546 dimer interface [polypeptide binding]; other site 177437006547 TPP binding site [chemical binding]; other site 177437006548 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 177437006549 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 177437006550 TPP-binding site [chemical binding]; other site 177437006551 dimer interface [polypeptide binding]; other site 177437006552 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 177437006553 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 177437006554 AIR carboxylase; Region: AIRC; smart01001 177437006555 plasmid segregation protein ParM; Provisional; Region: PRK13917 177437006556 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 177437006557 Mg binding site [ion binding]; other site 177437006558 nucleotide binding site [chemical binding]; other site 177437006559 putative protofilament interface [polypeptide binding]; other site 177437006560 Transposase; Region: HTH_Tnp_1; cl17663 177437006561 Winged helix-turn helix; Region: HTH_29; pfam13551 177437006562 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 177437006563 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437006564 Walker A/P-loop; other site 177437006565 ATP binding site [chemical binding]; other site 177437006566 Q-loop/lid; other site 177437006567 ABC transporter signature motif; other site 177437006568 Walker B; other site 177437006569 D-loop; other site 177437006570 H-loop/switch region; other site 177437006571 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437006572 Walker A/P-loop; other site 177437006573 ATP binding site [chemical binding]; other site 177437006574 Q-loop/lid; other site 177437006575 ABC transporter signature motif; other site 177437006576 Walker B; other site 177437006577 D-loop; other site 177437006578 H-loop/switch region; other site 177437006579 ketol-acid reductoisomerase; Validated; Region: PRK05225 177437006580 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 177437006581 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 177437006582 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 177437006583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177437006584 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 177437006585 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 177437006586 putative dimerization interface [polypeptide binding]; other site 177437006587 AMP-binding domain protein; Validated; Region: PRK07529 177437006588 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437006589 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 177437006590 acyl-activating enzyme (AAE) consensus motif; other site 177437006591 putative AMP binding site [chemical binding]; other site 177437006592 putative active site [active] 177437006593 putative CoA binding site [chemical binding]; other site 177437006594 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 177437006595 Peptidase family U32; Region: Peptidase_U32; cl03113 177437006596 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 177437006597 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177437006598 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 177437006599 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 177437006600 putative metal binding residues [ion binding]; other site 177437006601 signature motif; other site 177437006602 dimer interface [polypeptide binding]; other site 177437006603 active site 177437006604 polyP binding site; other site 177437006605 substrate binding site [chemical binding]; other site 177437006606 acceptor-phosphate pocket; other site 177437006607 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 177437006608 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437006609 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437006610 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 177437006611 CotH protein; Region: CotH; pfam08757 177437006612 Right handed beta helix region; Region: Beta_helix; pfam13229 177437006613 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 177437006614 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 177437006615 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 177437006616 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 177437006617 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437006618 Coenzyme A binding pocket [chemical binding]; other site 177437006619 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 177437006620 Peptidase family M23; Region: Peptidase_M23; pfam01551 177437006621 Phosphotransferase enzyme family; Region: APH; pfam01636 177437006622 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 177437006623 active site 177437006624 ATP binding site [chemical binding]; other site 177437006625 Domain of unknown function (DUF309); Region: DUF309; pfam03745 177437006626 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 177437006627 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 177437006628 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177437006629 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437006630 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 177437006631 TM-ABC transporter signature motif; other site 177437006632 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 177437006633 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 177437006634 TM-ABC transporter signature motif; other site 177437006635 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 177437006636 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 177437006637 Walker A/P-loop; other site 177437006638 ATP binding site [chemical binding]; other site 177437006639 Q-loop/lid; other site 177437006640 ABC transporter signature motif; other site 177437006641 Walker B; other site 177437006642 D-loop; other site 177437006643 H-loop/switch region; other site 177437006644 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 177437006645 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 177437006646 Walker A/P-loop; other site 177437006647 ATP binding site [chemical binding]; other site 177437006648 Q-loop/lid; other site 177437006649 ABC transporter signature motif; other site 177437006650 Walker B; other site 177437006651 D-loop; other site 177437006652 H-loop/switch region; other site 177437006653 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 177437006654 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 177437006655 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 177437006656 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 177437006657 active site 177437006658 catalytic residues [active] 177437006659 metal binding site [ion binding]; metal-binding site 177437006660 Transposase; Region: DEDD_Tnp_IS110; pfam01548 177437006661 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 177437006662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 177437006663 ACT domain; Region: ACT_3; pfam10000 177437006664 Family description; Region: ACT_7; pfam13840 177437006665 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437006666 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437006667 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 177437006668 4Fe-4S binding domain; Region: Fer4_6; pfam12837 177437006669 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 177437006670 4Fe-4S binding domain; Region: Fer4; pfam00037 177437006671 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 177437006672 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 177437006673 acyl-activating enzyme (AAE) consensus motif; other site 177437006674 putative AMP binding site [chemical binding]; other site 177437006675 putative active site [active] 177437006676 putative CoA binding site [chemical binding]; other site 177437006677 Peptidase M15; Region: Peptidase_M15_3; cl01194 177437006678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 177437006679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 177437006680 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 177437006681 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 177437006682 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 177437006683 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 177437006684 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 177437006685 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 177437006686 HSP70 interaction site [polypeptide binding]; other site 177437006687 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 177437006688 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 177437006689 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 177437006690 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 177437006691 Trp repressor protein; Region: Trp_repressor; cl17266 177437006692 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 177437006693 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 177437006694 dimer interface [polypeptide binding]; other site 177437006695 PYR/PP interface [polypeptide binding]; other site 177437006696 TPP binding site [chemical binding]; other site 177437006697 substrate binding site [chemical binding]; other site 177437006698 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 177437006699 TPP-binding site; other site 177437006700 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437006701 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 177437006702 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 177437006703 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437006704 acyl-activating enzyme (AAE) consensus motif; other site 177437006705 AMP binding site [chemical binding]; other site 177437006706 active site 177437006707 CoA binding site [chemical binding]; other site 177437006708 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437006709 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177437006710 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177437006711 DctM-like transporters; Region: DctM; pfam06808 177437006712 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177437006713 isoaspartyl dipeptidase; Provisional; Region: PRK10657 177437006714 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 177437006715 active site 177437006716 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 177437006717 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177437006718 Walker A/P-loop; other site 177437006719 ATP binding site [chemical binding]; other site 177437006720 Q-loop/lid; other site 177437006721 ABC transporter signature motif; other site 177437006722 Walker B; other site 177437006723 D-loop; other site 177437006724 H-loop/switch region; other site 177437006725 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 177437006726 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177437006727 Walker A/P-loop; other site 177437006728 ATP binding site [chemical binding]; other site 177437006729 Q-loop/lid; other site 177437006730 ABC transporter signature motif; other site 177437006731 Walker B; other site 177437006732 D-loop; other site 177437006733 H-loop/switch region; other site 177437006734 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 177437006735 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 177437006736 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 177437006737 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 177437006738 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 177437006739 dimer interface [polypeptide binding]; other site 177437006740 conserved gate region; other site 177437006741 putative PBP binding loops; other site 177437006742 ABC-ATPase subunit interface; other site 177437006743 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 177437006744 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 177437006745 dimer interface [polypeptide binding]; other site 177437006746 ABC-ATPase subunit interface; other site 177437006747 putative PBP binding loops; other site 177437006748 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 177437006749 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 177437006750 catalytic triad [active] 177437006751 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 177437006752 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 177437006753 homodimer interface [polypeptide binding]; other site 177437006754 substrate-cofactor binding pocket; other site 177437006755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437006756 catalytic residue [active] 177437006757 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 177437006758 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 177437006759 putative acyl-acceptor binding pocket; other site 177437006760 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 177437006761 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 177437006762 trimerization site [polypeptide binding]; other site 177437006763 active site 177437006764 Uncharacterized conserved protein [Function unknown]; Region: COG1433 177437006765 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 177437006766 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 177437006767 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 177437006768 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 177437006769 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437006770 Coenzyme A binding pocket [chemical binding]; other site 177437006771 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 177437006772 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 177437006773 NADP binding site [chemical binding]; other site 177437006774 active site 177437006775 putative substrate binding site [chemical binding]; other site 177437006776 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 177437006777 homodimer interface [polypeptide binding]; other site 177437006778 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 177437006779 active site pocket [active] 177437006780 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437006781 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437006782 Recombinase; Region: Recombinase; pfam07508 177437006783 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 177437006784 DHH family; Region: DHH; pfam01368 177437006785 DHHA1 domain; Region: DHHA1; pfam02272 177437006786 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 177437006787 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 177437006788 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 177437006789 FeS/SAM binding site; other site 177437006790 TRAM domain; Region: TRAM; cl01282 177437006791 methionine aminopeptidase; Provisional; Region: PRK12318 177437006792 SEC-C motif; Region: SEC-C; pfam02810 177437006793 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 177437006794 active site 177437006795 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 177437006796 Carbon starvation protein CstA; Region: CstA; pfam02554 177437006797 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 177437006798 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 177437006799 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 177437006800 P loop; other site 177437006801 Nucleotide binding site [chemical binding]; other site 177437006802 DTAP/Switch II; other site 177437006803 Switch I; other site 177437006804 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 177437006805 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 177437006806 Transposase [DNA replication, recombination, and repair]; Region: COG5421 177437006807 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437006808 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437006809 putative substrate translocation pore; other site 177437006810 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 177437006811 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 177437006812 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 177437006813 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 177437006814 DHH family; Region: DHH; pfam01368 177437006815 FOG: CBS domain [General function prediction only]; Region: COG0517 177437006816 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 177437006817 peptide synthase; Provisional; Region: PRK09274 177437006818 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 177437006819 acyl-activating enzyme (AAE) consensus motif; other site 177437006820 putative AMP binding site [chemical binding]; other site 177437006821 putative active site [active] 177437006822 putative CoA binding site [chemical binding]; other site 177437006823 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 177437006824 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 177437006825 G1 box; other site 177437006826 GTP/Mg2+ binding site [chemical binding]; other site 177437006827 G2 box; other site 177437006828 Switch I region; other site 177437006829 G3 box; other site 177437006830 Switch II region; other site 177437006831 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 177437006832 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 177437006833 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 177437006834 Predicted transcriptional regulator [Transcription]; Region: COG2932 177437006835 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 177437006836 Catalytic site [active] 177437006837 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 177437006838 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 177437006839 putative active site [active] 177437006840 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 177437006841 CoA binding domain; Region: CoA_binding_2; pfam13380 177437006842 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 177437006843 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 177437006844 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 177437006845 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 177437006846 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 177437006847 hinge; other site 177437006848 active site 177437006849 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 177437006850 Competence protein; Region: Competence; pfam03772 177437006851 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 177437006852 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 177437006853 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 177437006854 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 177437006855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 177437006856 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 177437006857 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 177437006858 Permease; Region: Permease; pfam02405 177437006859 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 177437006860 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 177437006861 Walker A/P-loop; other site 177437006862 ATP binding site [chemical binding]; other site 177437006863 Q-loop/lid; other site 177437006864 ABC transporter signature motif; other site 177437006865 Walker B; other site 177437006866 D-loop; other site 177437006867 H-loop/switch region; other site 177437006868 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 177437006869 mce related protein; Region: MCE; pfam02470 177437006870 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 177437006871 VacJ like lipoprotein; Region: VacJ; cl01073 177437006872 Predicted amidohydrolase [General function prediction only]; Region: COG0388 177437006873 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 177437006874 active site 177437006875 catalytic triad [active] 177437006876 dimer interface [polypeptide binding]; other site 177437006877 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 177437006878 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 177437006879 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 177437006880 DsrC like protein; Region: DsrC; pfam04358 177437006881 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 177437006882 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 177437006883 FAD binding pocket [chemical binding]; other site 177437006884 FAD binding motif [chemical binding]; other site 177437006885 phosphate binding motif [ion binding]; other site 177437006886 beta-alpha-beta structure motif; other site 177437006887 NAD binding pocket [chemical binding]; other site 177437006888 Iron coordination center [ion binding]; other site 177437006889 sulfite reductase, subunit A; Region: sulfite_red_A; TIGR02910 177437006890 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 177437006891 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 177437006892 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 177437006893 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 177437006894 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437006895 4Fe-4S binding domain; Region: Fer4; pfam00037 177437006896 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 177437006897 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437006898 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437006899 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437006900 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437006901 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437006902 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 177437006903 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 177437006904 Tetratricopeptide repeat; Region: TPR_6; pfam13174 177437006905 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 177437006906 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177437006907 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 177437006908 active site 177437006909 ADP/pyrophosphate binding site [chemical binding]; other site 177437006910 dimerization interface [polypeptide binding]; other site 177437006911 allosteric effector site; other site 177437006912 fructose-1,6-bisphosphate binding site; other site 177437006913 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 177437006914 putative active site [active] 177437006915 KpsF/GutQ family protein; Region: kpsF; TIGR00393 177437006916 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 177437006917 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 177437006918 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437006919 homodimer interface [polypeptide binding]; other site 177437006920 catalytic residue [active] 177437006921 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 177437006922 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 177437006923 Cl- selectivity filter; other site 177437006924 Cl- binding residues [ion binding]; other site 177437006925 pore gating glutamate residue; other site 177437006926 dimer interface [polypeptide binding]; other site 177437006927 FOG: CBS domain [General function prediction only]; Region: COG0517 177437006928 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 177437006929 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 177437006930 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 177437006931 dimerization interface 3.5A [polypeptide binding]; other site 177437006932 active site 177437006933 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 177437006934 heterotetramer interface [polypeptide binding]; other site 177437006935 active site pocket [active] 177437006936 cleavage site 177437006937 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 177437006938 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 177437006939 RNA binding surface [nucleotide binding]; other site 177437006940 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 177437006941 active site 177437006942 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177437006943 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 177437006944 dimerization interface [polypeptide binding]; other site 177437006945 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 177437006946 phosphorylation site [posttranslational modification] 177437006947 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 177437006948 ATP binding site [chemical binding]; other site 177437006949 Mg2+ binding site [ion binding]; other site 177437006950 G-X-G motif; other site 177437006951 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437006952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437006953 active site 177437006954 phosphorylation site [posttranslational modification] 177437006955 intermolecular recognition site; other site 177437006956 dimerization interface [polypeptide binding]; other site 177437006957 Response regulator receiver domain; Region: Response_reg; pfam00072 177437006958 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437006959 active site 177437006960 phosphorylation site [posttranslational modification] 177437006961 intermolecular recognition site; other site 177437006962 dimerization interface [polypeptide binding]; other site 177437006963 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437006964 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437006965 metal binding site [ion binding]; metal-binding site 177437006966 active site 177437006967 I-site; other site 177437006968 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 177437006969 active site 177437006970 catalytic triad [active] 177437006971 oxyanion hole [active] 177437006972 heat shock protein HtpX; Provisional; Region: PRK03982 177437006973 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 177437006974 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 177437006975 DXD motif; other site 177437006976 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 177437006977 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437006978 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 177437006979 dimerization interface [polypeptide binding]; other site 177437006980 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 177437006981 dimer interface [polypeptide binding]; other site 177437006982 phosphorylation site [posttranslational modification] 177437006983 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 177437006984 ATP binding site [chemical binding]; other site 177437006985 Mg2+ binding site [ion binding]; other site 177437006986 G-X-G motif; other site 177437006987 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437006988 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437006989 active site 177437006990 phosphorylation site [posttranslational modification] 177437006991 intermolecular recognition site; other site 177437006992 dimerization interface [polypeptide binding]; other site 177437006993 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 177437006994 Walker A motif; other site 177437006995 ATP binding site [chemical binding]; other site 177437006996 Walker B motif; other site 177437006997 arginine finger; other site 177437006998 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437006999 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 177437007000 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 177437007001 active site 177437007002 HIGH motif; other site 177437007003 dimer interface [polypeptide binding]; other site 177437007004 KMSKS motif; other site 177437007005 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 177437007006 DHH family; Region: DHH; pfam01368 177437007007 DHHA1 domain; Region: DHHA1; pfam02272 177437007008 FOG: CBS domain [General function prediction only]; Region: COG0517 177437007009 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 177437007010 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 177437007011 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 177437007012 active site 177437007013 NTP binding site [chemical binding]; other site 177437007014 metal binding triad [ion binding]; metal-binding site 177437007015 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 177437007016 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 177437007017 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 177437007018 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 177437007019 putative acyl-acceptor binding pocket; other site 177437007020 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 177437007021 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 177437007022 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 177437007023 Inner membrane protein CreD; Region: CreD; cl01844 177437007024 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 177437007025 phosphorylation site [posttranslational modification] 177437007026 dimer interface [polypeptide binding]; other site 177437007027 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 177437007028 ATP binding site [chemical binding]; other site 177437007029 Mg2+ binding site [ion binding]; other site 177437007030 G-X-G motif; other site 177437007031 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 177437007032 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 177437007033 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 177437007034 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 177437007035 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 177437007036 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 177437007037 putative substrate-binding site; other site 177437007038 nickel binding site [ion binding]; other site 177437007039 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 177437007040 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 177437007041 dimer interface [polypeptide binding]; other site 177437007042 putative anticodon binding site; other site 177437007043 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 177437007044 motif 1; other site 177437007045 active site 177437007046 motif 2; other site 177437007047 motif 3; other site 177437007048 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 177437007049 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177437007050 FtsX-like permease family; Region: FtsX; pfam02687 177437007051 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177437007052 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177437007053 Walker A/P-loop; other site 177437007054 ATP binding site [chemical binding]; other site 177437007055 Q-loop/lid; other site 177437007056 ABC transporter signature motif; other site 177437007057 Walker B; other site 177437007058 D-loop; other site 177437007059 H-loop/switch region; other site 177437007060 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 177437007061 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177437007062 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177437007063 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177437007064 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177437007065 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177437007066 Surface antigen; Region: Bac_surface_Ag; pfam01103 177437007067 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 177437007068 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 177437007069 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 177437007070 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 177437007071 trimer interface [polypeptide binding]; other site 177437007072 active site 177437007073 UDP-GlcNAc binding site [chemical binding]; other site 177437007074 lipid binding site [chemical binding]; lipid-binding site 177437007075 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 177437007076 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 177437007077 active site 177437007078 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 177437007079 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 177437007080 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 177437007081 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 177437007082 Domain of unknown function DUF21; Region: DUF21; pfam01595 177437007083 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 177437007084 Transporter associated domain; Region: CorC_HlyC; smart01091 177437007085 Chorismate mutase type II; Region: CM_2; smart00830 177437007086 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 177437007087 Prephenate dehydratase; Region: PDT; pfam00800 177437007088 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 177437007089 putative L-Phe binding site [chemical binding]; other site 177437007090 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 177437007091 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 177437007092 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 177437007093 NAD(P) binding site [chemical binding]; other site 177437007094 shikimate binding site; other site 177437007095 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 177437007096 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 177437007097 hinge; other site 177437007098 active site 177437007099 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 177437007100 Shikimate kinase; Region: SKI; pfam01202 177437007101 ADP binding site [chemical binding]; other site 177437007102 magnesium binding site [ion binding]; other site 177437007103 putative shikimate binding site; other site 177437007104 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 177437007105 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 177437007106 Tetramer interface [polypeptide binding]; other site 177437007107 active site 177437007108 FMN-binding site [chemical binding]; other site 177437007109 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 177437007110 DNA-binding site [nucleotide binding]; DNA binding site 177437007111 RNA-binding motif; other site 177437007112 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 177437007113 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 177437007114 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 177437007115 Walker A motif; other site 177437007116 ATP binding site [chemical binding]; other site 177437007117 Walker B motif; other site 177437007118 arginine finger; other site 177437007119 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 177437007120 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 177437007121 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 177437007122 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 177437007123 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 177437007124 dimer interface [polypeptide binding]; other site 177437007125 conserved gate region; other site 177437007126 putative PBP binding loops; other site 177437007127 ABC-ATPase subunit interface; other site 177437007128 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 177437007129 dimer interface [polypeptide binding]; other site 177437007130 conserved gate region; other site 177437007131 putative PBP binding loops; other site 177437007132 ABC-ATPase subunit interface; other site 177437007133 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 177437007134 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437007135 Walker A/P-loop; other site 177437007136 ATP binding site [chemical binding]; other site 177437007137 Q-loop/lid; other site 177437007138 ABC transporter signature motif; other site 177437007139 Walker B; other site 177437007140 D-loop; other site 177437007141 H-loop/switch region; other site 177437007142 TOBE domain; Region: TOBE_2; pfam08402 177437007143 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 177437007144 TPR repeat; Region: TPR_11; pfam13414 177437007145 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 177437007146 binding surface 177437007147 TPR motif; other site 177437007148 TPR repeat; Region: TPR_11; pfam13414 177437007149 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 177437007150 binding surface 177437007151 TPR motif; other site 177437007152 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 177437007153 TPR motif; other site 177437007154 TPR repeat; Region: TPR_11; pfam13414 177437007155 binding surface 177437007156 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 177437007157 TPR motif; other site 177437007158 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437007159 binding surface 177437007160 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437007161 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 177437007162 binding surface 177437007163 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437007164 TPR motif; other site 177437007165 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437007166 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 177437007167 binding surface 177437007168 TPR motif; other site 177437007169 TPR repeat; Region: TPR_11; pfam13414 177437007170 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 177437007171 TPR motif; other site 177437007172 binding surface 177437007173 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437007174 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 177437007175 TPR motif; other site 177437007176 binding surface 177437007177 TPR repeat; Region: TPR_11; pfam13414 177437007178 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437007179 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 177437007180 ligand binding site [chemical binding]; other site 177437007181 flexible hinge region; other site 177437007182 hypothetical protein; Provisional; Region: PRK10279 177437007183 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 177437007184 nucleophile elbow; other site 177437007185 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437007186 active site 177437007187 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437007188 phosphorylation site [posttranslational modification] 177437007189 intermolecular recognition site; other site 177437007190 dimerization interface [polypeptide binding]; other site 177437007191 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 177437007192 dimer interface [polypeptide binding]; other site 177437007193 phosphorylation site [posttranslational modification] 177437007194 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 177437007195 ATP binding site [chemical binding]; other site 177437007196 Mg2+ binding site [ion binding]; other site 177437007197 G-X-G motif; other site 177437007198 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 177437007199 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 177437007200 alpha subunit interface [polypeptide binding]; other site 177437007201 TPP binding site [chemical binding]; other site 177437007202 heterodimer interface [polypeptide binding]; other site 177437007203 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177437007204 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 177437007205 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 177437007206 tetramer interface [polypeptide binding]; other site 177437007207 TPP-binding site [chemical binding]; other site 177437007208 heterodimer interface [polypeptide binding]; other site 177437007209 phosphorylation loop region [posttranslational modification] 177437007210 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 177437007211 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 177437007212 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 177437007213 putative active site [active] 177437007214 heme pocket [chemical binding]; other site 177437007215 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 177437007216 putative active site [active] 177437007217 heme pocket [chemical binding]; other site 177437007218 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 177437007219 Walker A motif; other site 177437007220 ATP binding site [chemical binding]; other site 177437007221 Walker B motif; other site 177437007222 arginine finger; other site 177437007223 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437007224 Response regulator receiver domain; Region: Response_reg; pfam00072 177437007225 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437007226 active site 177437007227 phosphorylation site [posttranslational modification] 177437007228 intermolecular recognition site; other site 177437007229 dimerization interface [polypeptide binding]; other site 177437007230 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437007231 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437007232 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 177437007233 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437007234 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 177437007235 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 177437007236 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 177437007237 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 177437007238 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 177437007239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437007240 4Fe-4S binding domain; Region: Fer4; pfam00037 177437007241 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437007242 4Fe-4S binding domain; Region: Fer4; pfam00037 177437007243 Response regulator receiver domain; Region: Response_reg; pfam00072 177437007244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437007245 active site 177437007246 phosphorylation site [posttranslational modification] 177437007247 intermolecular recognition site; other site 177437007248 dimerization interface [polypeptide binding]; other site 177437007249 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437007250 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437007251 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 177437007252 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 177437007253 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 177437007254 Cysteine-rich domain; Region: CCG; pfam02754 177437007255 Cysteine-rich domain; Region: CCG; pfam02754 177437007256 Transposase; Region: DEDD_Tnp_IS110; pfam01548 177437007257 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 177437007258 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 177437007259 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 177437007260 putative trimer interface [polypeptide binding]; other site 177437007261 putative CoA binding site [chemical binding]; other site 177437007262 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 177437007263 active site 177437007264 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 177437007265 dimer interface [polypeptide binding]; other site 177437007266 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 177437007267 Ligand Binding Site [chemical binding]; other site 177437007268 Molecular Tunnel; other site 177437007269 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 177437007270 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 177437007271 active site pocket [active] 177437007272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 177437007273 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 177437007274 AAA domain; Region: AAA_33; pfam13671 177437007275 active site 177437007276 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 177437007277 transmembrane helices; other site 177437007278 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177437007279 TrkA-C domain; Region: TrkA_C; pfam02080 177437007280 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 177437007281 Conserved TM helix; Region: TM_helix; pfam05552 177437007282 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177437007283 hypothetical protein; Provisional; Region: PRK11295 177437007284 HDOD domain; Region: HDOD; pfam08668 177437007285 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437007286 Zn2+ binding site [ion binding]; other site 177437007287 Mg2+ binding site [ion binding]; other site 177437007288 GAF domain; Region: GAF_2; pfam13185 177437007289 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437007290 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437007291 metal binding site [ion binding]; metal-binding site 177437007292 active site 177437007293 I-site; other site 177437007294 Domain of unknown function DUF77; Region: DUF77; pfam01910 177437007295 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 177437007296 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 177437007297 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 177437007298 TrkA-C domain; Region: TrkA_C; pfam02080 177437007299 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 177437007300 active site 177437007301 phosphorylation site [posttranslational modification] 177437007302 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 177437007303 putative active site [active] 177437007304 dimerization interface [polypeptide binding]; other site 177437007305 putative tRNAtyr binding site [nucleotide binding]; other site 177437007306 Phosphate transporter family; Region: PHO4; pfam01384 177437007307 4Fe-4S binding domain; Region: Fer4_5; pfam12801 177437007308 4Fe-4S binding domain; Region: Fer4_5; pfam12801 177437007309 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 177437007310 4Fe-4S binding domain; Region: Fer4; cl02805 177437007311 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 177437007312 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 177437007313 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437007314 Uncharacterized conserved protein [Function unknown]; Region: COG2006 177437007315 Domain of unknown function (DUF362); Region: DUF362; pfam04015 177437007316 phosphoenolpyruvate synthase; Validated; Region: PRK06464 177437007317 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177437007318 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 177437007319 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 177437007320 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 177437007321 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437007322 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437007323 active site 177437007324 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 177437007325 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 177437007326 substrate binding pocket [chemical binding]; other site 177437007327 membrane-bound complex binding site; other site 177437007328 hinge residues; other site 177437007329 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 177437007330 dimer interface [polypeptide binding]; other site 177437007331 conserved gate region; other site 177437007332 putative PBP binding loops; other site 177437007333 ABC-ATPase subunit interface; other site 177437007334 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177437007335 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177437007336 Walker A/P-loop; other site 177437007337 ATP binding site [chemical binding]; other site 177437007338 Q-loop/lid; other site 177437007339 ABC transporter signature motif; other site 177437007340 Walker B; other site 177437007341 D-loop; other site 177437007342 H-loop/switch region; other site 177437007343 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 177437007344 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 177437007345 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 177437007346 Walker A motif; other site 177437007347 ATP binding site [chemical binding]; other site 177437007348 Walker B motif; other site 177437007349 arginine finger; other site 177437007350 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177437007351 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437007352 ligand binding site [chemical binding]; other site 177437007353 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 177437007354 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 177437007355 NAD binding site [chemical binding]; other site 177437007356 substrate binding site [chemical binding]; other site 177437007357 homodimer interface [polypeptide binding]; other site 177437007358 active site 177437007359 pyruvate phosphate dikinase; Provisional; Region: PRK09279 177437007360 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177437007361 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 177437007362 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 177437007363 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 177437007364 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177437007365 ABC transporter; Region: ABC_tran_2; pfam12848 177437007366 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177437007367 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 177437007368 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 177437007369 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 177437007370 Walker A motif; other site 177437007371 ATP binding site [chemical binding]; other site 177437007372 Walker B motif; other site 177437007373 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437007374 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 177437007375 ligand binding site [chemical binding]; other site 177437007376 flexible hinge region; other site 177437007377 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 177437007378 active site 177437007379 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 177437007380 homodimer interface [polypeptide binding]; other site 177437007381 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 177437007382 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 177437007383 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 177437007384 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 177437007385 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 177437007386 NAD binding site [chemical binding]; other site 177437007387 substrate binding site [chemical binding]; other site 177437007388 homodimer interface [polypeptide binding]; other site 177437007389 active site 177437007390 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 177437007391 Ligand Binding Site [chemical binding]; other site 177437007392 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 177437007393 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177437007394 catalytic residue [active] 177437007395 Maf-like protein; Region: Maf; pfam02545 177437007396 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 177437007397 active site 177437007398 dimer interface [polypeptide binding]; other site 177437007399 Uncharacterized conserved protein [Function unknown]; Region: COG1633 177437007400 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 177437007401 diiron binding motif [ion binding]; other site 177437007402 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 177437007403 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 177437007404 ATP binding site [chemical binding]; other site 177437007405 Mg++ binding site [ion binding]; other site 177437007406 motif III; other site 177437007407 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 177437007408 nucleotide binding region [chemical binding]; other site 177437007409 ATP-binding site [chemical binding]; other site 177437007410 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 177437007411 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 177437007412 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 177437007413 cobalt transport protein CbiM; Validated; Region: PRK06265 177437007414 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 177437007415 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 177437007416 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 177437007417 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 177437007418 Walker A/P-loop; other site 177437007419 ATP binding site [chemical binding]; other site 177437007420 Q-loop/lid; other site 177437007421 ABC transporter signature motif; other site 177437007422 Walker B; other site 177437007423 D-loop; other site 177437007424 H-loop/switch region; other site 177437007425 Adenosylhomocysteinase; Provisional; Region: PTZ00075 177437007426 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 177437007427 homotetramer interface [polypeptide binding]; other site 177437007428 ligand binding site [chemical binding]; other site 177437007429 catalytic site [active] 177437007430 NAD binding site [chemical binding]; other site 177437007431 S-adenosylmethionine synthetase; Validated; Region: PRK05250 177437007432 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 177437007433 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 177437007434 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 177437007435 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 177437007436 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 177437007437 substrate binding site [chemical binding]; other site 177437007438 ATP binding site [chemical binding]; other site 177437007439 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 177437007440 S-adenosylmethionine binding site [chemical binding]; other site 177437007441 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 177437007442 Amidase; Region: Amidase; cl11426 177437007443 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 177437007444 homotrimer interaction site [polypeptide binding]; other site 177437007445 zinc binding site [ion binding]; other site 177437007446 CDP-binding sites; other site 177437007447 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 177437007448 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 177437007449 active site 177437007450 HIGH motif; other site 177437007451 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 177437007452 KMSKS motif; other site 177437007453 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 177437007454 tRNA binding surface [nucleotide binding]; other site 177437007455 anticodon binding site; other site 177437007456 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 177437007457 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177437007458 active site 177437007459 HIGH motif; other site 177437007460 nucleotide binding site [chemical binding]; other site 177437007461 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 177437007462 KMSKS motif; other site 177437007463 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 177437007464 excinuclease ABC subunit B; Provisional; Region: PRK05298 177437007465 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 177437007466 ATP binding site [chemical binding]; other site 177437007467 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 177437007468 nucleotide binding region [chemical binding]; other site 177437007469 ATP-binding site [chemical binding]; other site 177437007470 Ultra-violet resistance protein B; Region: UvrB; pfam12344 177437007471 UvrB/uvrC motif; Region: UVR; pfam02151 177437007472 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 177437007473 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 177437007474 GIY-YIG motif/motif A; other site 177437007475 active site 177437007476 catalytic site [active] 177437007477 putative DNA binding site [nucleotide binding]; other site 177437007478 metal binding site [ion binding]; metal-binding site 177437007479 UvrB/uvrC motif; Region: UVR; pfam02151 177437007480 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 177437007481 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 177437007482 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 177437007483 active site 177437007484 motif I; other site 177437007485 motif II; other site 177437007486 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 177437007487 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 177437007488 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 177437007489 substrate binding pocket [chemical binding]; other site 177437007490 membrane-bound complex binding site; other site 177437007491 hinge residues; other site 177437007492 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 177437007493 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177437007494 catalytic residue [active] 177437007495 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 177437007496 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 177437007497 CAP-like domain; other site 177437007498 active site 177437007499 primary dimer interface [polypeptide binding]; other site 177437007500 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 177437007501 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 177437007502 Mg2+ binding site [ion binding]; other site 177437007503 G-X-G motif; other site 177437007504 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 177437007505 anchoring element; other site 177437007506 dimer interface [polypeptide binding]; other site 177437007507 ATP binding site [chemical binding]; other site 177437007508 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 177437007509 active site 177437007510 metal binding site [ion binding]; metal-binding site 177437007511 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 177437007512 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 177437007513 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 177437007514 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 177437007515 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 177437007516 DNA methylase; Region: N6_N4_Mtase; pfam01555 177437007517 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 177437007518 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 177437007519 AAA domain; Region: AAA_32; pfam13654 177437007520 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 177437007521 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 177437007522 AAA domain; Region: AAA_30; pfam13604 177437007523 Family description; Region: UvrD_C_2; pfam13538 177437007524 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 177437007525 DNA-binding site [nucleotide binding]; DNA binding site 177437007526 RNA-binding motif; other site 177437007527 elongation factor P; Provisional; Region: PRK04542 177437007528 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 177437007529 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 177437007530 RNA binding site [nucleotide binding]; other site 177437007531 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 177437007532 RNA binding site [nucleotide binding]; other site 177437007533 haloalkane dehalogenase; Provisional; Region: PRK03592 177437007534 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 177437007535 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 177437007536 active site 177437007537 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 177437007538 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 177437007539 active site 177437007540 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 177437007541 polyketide beta-ketoacyl:acyl carrier protein synthase; Validated; Region: PRK07103 177437007542 active site 177437007543 Acyl transferase domain; Region: Acyl_transf_1; cl08282 177437007544 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 177437007545 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 177437007546 dimer interface [polypeptide binding]; other site 177437007547 active site 1 [active] 177437007548 active site 2 [active] 177437007549 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177437007550 EamA-like transporter family; Region: EamA; pfam00892 177437007551 EamA-like transporter family; Region: EamA; pfam00892 177437007552 Rhomboid family; Region: Rhomboid; pfam01694 177437007553 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 177437007554 MoaE interaction surface [polypeptide binding]; other site 177437007555 MoeB interaction surface [polypeptide binding]; other site 177437007556 thiocarboxylated glycine; other site 177437007557 hypothetical protein; Provisional; Region: PRK08328 177437007558 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 177437007559 ATP binding site [chemical binding]; other site 177437007560 substrate interface [chemical binding]; other site 177437007561 NAD-dependent deacetylase; Provisional; Region: PRK00481 177437007562 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 177437007563 NAD+ binding site [chemical binding]; other site 177437007564 substrate binding site [chemical binding]; other site 177437007565 Zn binding site [ion binding]; other site 177437007566 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 177437007567 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 177437007568 inhibitor-cofactor binding pocket; inhibition site 177437007569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437007570 catalytic residue [active] 177437007571 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 177437007572 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 177437007573 active site 177437007574 catalytic site [active] 177437007575 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 177437007576 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 177437007577 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 177437007578 putative homodimer interface [polypeptide binding]; other site 177437007579 putative active site pocket [active] 177437007580 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 177437007581 glycogen synthase; Provisional; Region: glgA; PRK00654 177437007582 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 177437007583 ADP-binding pocket [chemical binding]; other site 177437007584 homodimer interface [polypeptide binding]; other site 177437007585 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]; Region: GlgB; COG0296 177437007586 N-terminal Early set domain associated with the catalytic domain of eukaryotic glycogen branching enzyme (also called 1,4 alpha glucan branching enzyme); Region: E_set_GBE_euk_N; cd02854 177437007587 Alpha amylase catalytic domain found in bacterial and eukaryotic branching enzymes; Region: AmyAc_bac_euk_BE; cd11321 177437007588 active site 177437007589 catalytic site [active] 177437007590 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 177437007591 PilZ domain; Region: PilZ; pfam07238 177437007592 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 177437007593 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 177437007594 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 177437007595 P-loop; other site 177437007596 Magnesium ion binding site [ion binding]; other site 177437007597 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 177437007598 Magnesium ion binding site [ion binding]; other site 177437007599 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 177437007600 active site 177437007601 catalytic triad [active] 177437007602 oxyanion hole [active] 177437007603 switch loop; other site 177437007604 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177437007605 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177437007606 Walker A/P-loop; other site 177437007607 ATP binding site [chemical binding]; other site 177437007608 Q-loop/lid; other site 177437007609 ABC transporter signature motif; other site 177437007610 Walker B; other site 177437007611 D-loop; other site 177437007612 H-loop/switch region; other site 177437007613 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 177437007614 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177437007615 FtsX-like permease family; Region: FtsX; pfam02687 177437007616 Putative integral membrane protein DUF46; Region: DUF46; cl17511 177437007617 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 177437007618 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 177437007619 putative active site [active] 177437007620 putative metal binding site [ion binding]; other site 177437007621 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 177437007622 putative FMN binding site [chemical binding]; other site 177437007623 NADPH bind site [chemical binding]; other site 177437007624 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 177437007625 diiron binding motif [ion binding]; other site 177437007626 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 177437007627 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 177437007628 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 177437007629 dimer interface [polypeptide binding]; other site 177437007630 active site 177437007631 metal binding site [ion binding]; metal-binding site 177437007632 glutathione binding site [chemical binding]; other site 177437007633 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 177437007634 dimer interface [polypeptide binding]; other site 177437007635 catalytic triad [active] 177437007636 peroxidatic and resolving cysteines [active] 177437007637 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 177437007638 Ligand Binding Site [chemical binding]; other site 177437007639 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 177437007640 Ligand Binding Site [chemical binding]; other site 177437007641 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 177437007642 SLBB domain; Region: SLBB; pfam10531 177437007643 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 177437007644 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 177437007645 FMN-binding domain; Region: FMN_bind; cl01081 177437007646 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 177437007647 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 177437007648 ferredoxin; Validated; Region: PRK07118 177437007649 Putative Fe-S cluster; Region: FeS; cl17515 177437007650 4Fe-4S binding domain; Region: Fer4; pfam00037 177437007651 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 177437007652 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437007653 Integrase core domain; Region: rve; pfam00665 177437007654 AAA domain; Region: AAA_22; pfam13401 177437007655 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 177437007656 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 177437007657 ACT domain-containing protein [General function prediction only]; Region: COG4747 177437007658 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 177437007659 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 177437007660 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437007661 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 177437007662 acyl-activating enzyme (AAE) consensus motif; other site 177437007663 AMP binding site [chemical binding]; other site 177437007664 active site 177437007665 CoA binding site [chemical binding]; other site 177437007666 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 177437007667 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 177437007668 substrate binding site [chemical binding]; other site 177437007669 oxyanion hole (OAH) forming residues; other site 177437007670 trimer interface [polypeptide binding]; other site 177437007671 AMIN domain; Region: AMIN; pfam11741 177437007672 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 177437007673 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 177437007674 active site 177437007675 metal binding site [ion binding]; metal-binding site 177437007676 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 177437007677 MutS domain I; Region: MutS_I; pfam01624 177437007678 MutS domain II; Region: MutS_II; pfam05188 177437007679 MutS domain III; Region: MutS_III; pfam05192 177437007680 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 177437007681 Walker A/P-loop; other site 177437007682 ATP binding site [chemical binding]; other site 177437007683 Q-loop/lid; other site 177437007684 ABC transporter signature motif; other site 177437007685 Walker B; other site 177437007686 D-loop; other site 177437007687 H-loop/switch region; other site 177437007688 Peptidase family M23; Region: Peptidase_M23; pfam01551 177437007689 Predicted RNA-binding protein; Region: RNA_bind_2; pfam10133 177437007690 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 177437007691 Pyrobaculum aerophilum PAE1087 and related proteins, metallophosphatase domain; Region: MPP_PAE1087; cd07392 177437007692 putative active site [active] 177437007693 putative metal binding site [ion binding]; other site 177437007694 hypothetical protein; Provisional; Region: PRK04334 177437007695 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 177437007696 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437007697 Zn2+ binding site [ion binding]; other site 177437007698 Mg2+ binding site [ion binding]; other site 177437007699 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 177437007700 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 177437007701 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 177437007702 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 177437007703 binding surface 177437007704 TPR motif; other site 177437007705 TPR repeat; Region: TPR_11; pfam13414 177437007706 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 177437007707 binding surface 177437007708 TPR motif; other site 177437007709 TPR repeat; Region: TPR_11; pfam13414 177437007710 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 177437007711 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 177437007712 TPR motif; other site 177437007713 binding surface 177437007714 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 177437007715 binding surface 177437007716 TPR motif; other site 177437007717 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 177437007718 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 177437007719 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177437007720 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 177437007721 DNA binding residues [nucleotide binding] 177437007722 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 177437007723 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 177437007724 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177437007725 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437007726 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 177437007727 ligand binding site [chemical binding]; other site 177437007728 flexible hinge region; other site 177437007729 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 177437007730 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177437007731 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 177437007732 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 177437007733 iron-sulfur cluster [ion binding]; other site 177437007734 [2Fe-2S] cluster binding site [ion binding]; other site 177437007735 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437007736 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437007737 TrkA-N domain; Region: TrkA_N; pfam02254 177437007738 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 177437007739 DNA-binding site [nucleotide binding]; DNA binding site 177437007740 RNA-binding motif; other site 177437007741 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 177437007742 putative homodimer interface [polypeptide binding]; other site 177437007743 putative active site pocket [active] 177437007744 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 177437007745 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 177437007746 PAS domain S-box; Region: sensory_box; TIGR00229 177437007747 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 177437007748 putative active site [active] 177437007749 heme pocket [chemical binding]; other site 177437007750 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437007751 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 177437007752 putative active site [active] 177437007753 heme pocket [chemical binding]; other site 177437007754 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 177437007755 dimer interface [polypeptide binding]; other site 177437007756 phosphorylation site [posttranslational modification] 177437007757 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 177437007758 ATP binding site [chemical binding]; other site 177437007759 Mg2+ binding site [ion binding]; other site 177437007760 G-X-G motif; other site 177437007761 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437007762 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437007763 active site 177437007764 phosphorylation site [posttranslational modification] 177437007765 intermolecular recognition site; other site 177437007766 dimerization interface [polypeptide binding]; other site 177437007767 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 177437007768 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 177437007769 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 177437007770 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437007771 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177437007772 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177437007773 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437007774 active site 177437007775 phosphorylation site [posttranslational modification] 177437007776 intermolecular recognition site; other site 177437007777 dimerization interface [polypeptide binding]; other site 177437007778 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 177437007779 DNA binding residues [nucleotide binding] 177437007780 dimerization interface [polypeptide binding]; other site 177437007781 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177437007782 GAF domain; Region: GAF; pfam01590 177437007783 GAF domain; Region: GAF_2; pfam13185 177437007784 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 177437007785 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 177437007786 ATP binding site [chemical binding]; other site 177437007787 Mg2+ binding site [ion binding]; other site 177437007788 G-X-G motif; other site 177437007789 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 177437007790 Na binding site [ion binding]; other site 177437007791 Catalytic domain of uncharacterized hypothetical proteins similar to eukaryotic phosphatidylinositol-specific phospholipase C, X domain containing proteins; Region: PI-PLCXDc_like_1; cd08620 177437007792 putative active site [active] 177437007793 catalytic site [active] 177437007794 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 177437007795 trehalose synthase; Region: treS_nterm; TIGR02456 177437007796 active site 177437007797 catalytic site [active] 177437007798 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 177437007799 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 177437007800 putative substrate binding site [chemical binding]; other site 177437007801 putative ATP binding site [chemical binding]; other site 177437007802 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 177437007803 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 177437007804 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 177437007805 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 177437007806 putative ADP-binding pocket [chemical binding]; other site 177437007807 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 177437007808 Sulphur transport; Region: Sulf_transp; pfam04143 177437007809 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 177437007810 dimerization interface [polypeptide binding]; other site 177437007811 putative DNA binding site [nucleotide binding]; other site 177437007812 putative Zn2+ binding site [ion binding]; other site 177437007813 potential frameshift: common BLAST hit: gi|218675872|ref|YP_002394691.1| probable oxidoreductase 177437007814 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437007815 active site 177437007816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437007817 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 177437007818 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 177437007819 Transcriptional regulators [Transcription]; Region: MarR; COG1846 177437007820 MarR family; Region: MarR_2; pfam12802 177437007821 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 177437007822 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 177437007823 molybdopterin cofactor binding site; other site 177437007824 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 177437007825 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 177437007826 molybdopterin cofactor binding site; other site 177437007827 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 177437007828 active site 177437007829 catalytic residues [active] 177437007830 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 177437007831 binding surface 177437007832 TPR motif; other site 177437007833 mce related protein; Region: MCE; pfam02470 177437007834 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 177437007835 ABC transporter; Region: ABC_tran; pfam00005 177437007836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437007837 Q-loop/lid; other site 177437007838 ABC transporter signature motif; other site 177437007839 Walker B; other site 177437007840 D-loop; other site 177437007841 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 177437007842 Permease; Region: Permease; pfam02405 177437007843 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177437007844 GAF domain; Region: GAF; pfam01590 177437007845 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 177437007846 cyclase homology domain; Region: CHD; cd07302 177437007847 nucleotidyl binding site; other site 177437007848 metal binding site [ion binding]; metal-binding site 177437007849 dimer interface [polypeptide binding]; other site 177437007850 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 177437007851 synthetase active site [active] 177437007852 metal binding site [ion binding]; metal-binding site 177437007853 NTP binding site [chemical binding]; other site 177437007854 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 177437007855 aminopeptidase N; Provisional; Region: pepN; PRK14015 177437007856 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 177437007857 active site 177437007858 Zn binding site [ion binding]; other site 177437007859 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177437007860 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437007861 active site 177437007862 intermolecular recognition site; other site 177437007863 dimerization interface [polypeptide binding]; other site 177437007864 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 177437007865 DNA binding residues [nucleotide binding] 177437007866 dimerization interface [polypeptide binding]; other site 177437007867 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 177437007868 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 177437007869 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 177437007870 homodimer interface [polypeptide binding]; other site 177437007871 substrate-cofactor binding pocket; other site 177437007872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437007873 catalytic residue [active] 177437007874 cyclase homology domain; Region: CHD; cd07302 177437007875 nucleotidyl binding site; other site 177437007876 metal binding site [ion binding]; metal-binding site 177437007877 dimer interface [polypeptide binding]; other site 177437007878 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437007879 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437007880 FOG: CBS domain [General function prediction only]; Region: COG0517 177437007881 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 177437007882 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 177437007883 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 177437007884 Ubiquitin-like proteins; Region: UBQ; cl00155 177437007885 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 177437007886 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 177437007887 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 177437007888 active site 177437007889 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 177437007890 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 177437007891 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 177437007892 Substrate binding site; other site 177437007893 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 177437007894 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 177437007895 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 177437007896 G1 box; other site 177437007897 GTP/Mg2+ binding site [chemical binding]; other site 177437007898 G2 box; other site 177437007899 Switch I region; other site 177437007900 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 177437007901 G3 box; other site 177437007902 Switch II region; other site 177437007903 G4 box; other site 177437007904 G5 box; other site 177437007905 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 177437007906 Ligand Binding Site [chemical binding]; other site 177437007907 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437007908 Zn2+ binding site [ion binding]; other site 177437007909 Mg2+ binding site [ion binding]; other site 177437007910 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 177437007911 HSP70 interaction site [polypeptide binding]; other site 177437007912 Probable dihydrodipicolinate reductase; Region: PLN02775 177437007913 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 177437007914 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 177437007915 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 177437007916 Substrate binding site; other site 177437007917 metal-binding site 177437007918 Phosphotransferase enzyme family; Region: APH; pfam01636 177437007919 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 177437007920 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 177437007921 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 177437007922 putative acyl-acceptor binding pocket; other site 177437007923 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 177437007924 RNA/DNA hybrid binding site [nucleotide binding]; other site 177437007925 active site 177437007926 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 177437007927 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 177437007928 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 177437007929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437007930 homodimer interface [polypeptide binding]; other site 177437007931 catalytic residue [active] 177437007932 cytidylate kinase; Provisional; Region: cmk; PRK00023 177437007933 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 177437007934 CMP-binding site; other site 177437007935 The sites determining sugar specificity; other site 177437007936 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 177437007937 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 177437007938 RNA binding site [nucleotide binding]; other site 177437007939 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 177437007940 RNA binding site [nucleotide binding]; other site 177437007941 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 177437007942 RNA binding site [nucleotide binding]; other site 177437007943 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 177437007944 RNA binding site [nucleotide binding]; other site 177437007945 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 177437007946 RNA binding site [nucleotide binding]; other site 177437007947 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 177437007948 RNA binding site [nucleotide binding]; other site 177437007949 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 177437007950 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 177437007951 oligomer interface [polypeptide binding]; other site 177437007952 tandem repeat interface [polypeptide binding]; other site 177437007953 active site residues [active] 177437007954 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 177437007955 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 177437007956 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 177437007957 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 177437007958 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 177437007959 active site 177437007960 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 177437007961 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 177437007962 active site 177437007963 PHP Thumb interface [polypeptide binding]; other site 177437007964 metal binding site [ion binding]; metal-binding site 177437007965 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 177437007966 generic binding surface II; other site 177437007967 generic binding surface I; other site 177437007968 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 177437007969 BON domain; Region: BON; pfam04972 177437007970 BON domain; Region: BON; pfam04972 177437007971 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 177437007972 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 177437007973 putative metal binding site [ion binding]; other site 177437007974 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 177437007975 HSP70 interaction site [polypeptide binding]; other site 177437007976 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 177437007977 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 177437007978 putative acyl-acceptor binding pocket; other site 177437007979 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 177437007980 Esterase/lipase [General function prediction only]; Region: COG1647 177437007981 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 177437007982 elongation factor G; Reviewed; Region: PRK12740 177437007983 G1 box; other site 177437007984 putative GEF interaction site [polypeptide binding]; other site 177437007985 GTP/Mg2+ binding site [chemical binding]; other site 177437007986 Switch I region; other site 177437007987 G2 box; other site 177437007988 G3 box; other site 177437007989 Switch II region; other site 177437007990 G4 box; other site 177437007991 G5 box; other site 177437007992 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 177437007993 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 177437007994 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 177437007995 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 177437007996 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 177437007997 S-adenosylmethionine binding site [chemical binding]; other site 177437007998 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 177437007999 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177437008000 active site 177437008001 HIGH motif; other site 177437008002 nucleotide binding site [chemical binding]; other site 177437008003 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 177437008004 active site 177437008005 KMSKS motif; other site 177437008006 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 177437008007 tRNA binding surface [nucleotide binding]; other site 177437008008 anticodon binding site; other site 177437008009 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 177437008010 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 177437008011 lipoprotein signal peptidase; Provisional; Region: PRK14787 177437008012 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 177437008013 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 177437008014 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 177437008015 pyruvate kinase; Provisional; Region: PRK05826 177437008016 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 177437008017 domain interfaces; other site 177437008018 active site 177437008019 lipoyl synthase; Provisional; Region: PRK05481 177437008020 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 177437008021 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 177437008022 tetramer interface [polypeptide binding]; other site 177437008023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437008024 catalytic residue [active] 177437008025 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 177437008026 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 177437008027 tetramer interface [polypeptide binding]; other site 177437008028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437008029 catalytic residue [active] 177437008030 glycine cleavage system protein H; Provisional; Region: PRK13380 177437008031 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 177437008032 lipoyl attachment site [posttranslational modification]; other site 177437008033 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 177437008034 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 177437008035 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437008036 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177437008037 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 177437008038 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 177437008039 putative DNA binding site [nucleotide binding]; other site 177437008040 putative Zn2+ binding site [ion binding]; other site 177437008041 AsnC family; Region: AsnC_trans_reg; pfam01037 177437008042 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 177437008043 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 177437008044 Walker A/P-loop; other site 177437008045 ATP binding site [chemical binding]; other site 177437008046 Q-loop/lid; other site 177437008047 ABC transporter signature motif; other site 177437008048 Walker B; other site 177437008049 D-loop; other site 177437008050 H-loop/switch region; other site 177437008051 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 177437008052 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 177437008053 Walker A/P-loop; other site 177437008054 ATP binding site [chemical binding]; other site 177437008055 Q-loop/lid; other site 177437008056 ABC transporter signature motif; other site 177437008057 Walker B; other site 177437008058 D-loop; other site 177437008059 H-loop/switch region; other site 177437008060 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 177437008061 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 177437008062 TM-ABC transporter signature motif; other site 177437008063 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437008064 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 177437008065 TM-ABC transporter signature motif; other site 177437008066 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 177437008067 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 177437008068 putative ligand binding site [chemical binding]; other site 177437008069 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 177437008070 Clp amino terminal domain; Region: Clp_N; pfam02861 177437008071 Clp amino terminal domain; Region: Clp_N; pfam02861 177437008072 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 177437008073 Walker A motif; other site 177437008074 ATP binding site [chemical binding]; other site 177437008075 Walker B motif; other site 177437008076 arginine finger; other site 177437008077 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 177437008078 Walker A motif; other site 177437008079 ATP binding site [chemical binding]; other site 177437008080 Walker B motif; other site 177437008081 arginine finger; other site 177437008082 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 177437008083 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177437008084 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 177437008085 Walker A motif; other site 177437008086 ATP binding site [chemical binding]; other site 177437008087 Walker B motif; other site 177437008088 arginine finger; other site 177437008089 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437008090 Response regulator receiver domain; Region: Response_reg; pfam00072 177437008091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437008092 active site 177437008093 phosphorylation site [posttranslational modification] 177437008094 intermolecular recognition site; other site 177437008095 dimerization interface [polypeptide binding]; other site 177437008096 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 177437008097 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 177437008098 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 177437008099 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 177437008100 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 177437008101 dimer interface [polypeptide binding]; other site 177437008102 active site 177437008103 CoA binding pocket [chemical binding]; other site 177437008104 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 177437008105 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 177437008106 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 177437008107 active site 177437008108 substrate binding site [chemical binding]; other site 177437008109 metal binding site [ion binding]; metal-binding site 177437008110 PilZ domain; Region: PilZ; pfam07238 177437008111 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 177437008112 ATP-sulfurylase; Region: ATPS; cd00517 177437008113 active site 177437008114 HXXH motif; other site 177437008115 flexible loop; other site 177437008116 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 177437008117 ligand-binding site [chemical binding]; other site 177437008118 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 177437008119 non-specific DNA binding site [nucleotide binding]; other site 177437008120 salt bridge; other site 177437008121 sequence-specific DNA binding site [nucleotide binding]; other site 177437008122 HipA N-terminal domain; Region: Couple_hipA; pfam13657 177437008123 HipA-like N-terminal domain; Region: HipA_N; pfam07805 177437008124 HipA-like C-terminal domain; Region: HipA_C; pfam07804 177437008125 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 177437008126 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 177437008127 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 177437008128 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437008129 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 177437008130 Coenzyme A binding pocket [chemical binding]; other site 177437008131 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 177437008132 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 177437008133 substrate binding site; other site 177437008134 tetramer interface; other site 177437008135 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 177437008136 Methyltransferase domain; Region: Methyltransf_26; pfam13659 177437008137 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 177437008138 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 177437008139 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437008140 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 177437008141 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 177437008142 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 177437008143 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 177437008144 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437008145 4Fe-4S binding domain; Region: Fer4; cl02805 177437008146 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 177437008147 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 177437008148 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 177437008149 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 177437008150 putative CoA binding site [chemical binding]; other site 177437008151 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 177437008152 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 177437008153 trimer interface [polypeptide binding]; other site 177437008154 active site 177437008155 substrate binding site [chemical binding]; other site 177437008156 CoA binding site [chemical binding]; other site 177437008157 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 177437008158 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 177437008159 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437008160 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177437008161 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 177437008162 FeS/SAM binding site; other site 177437008163 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 177437008164 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437008165 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_6; cd04955 177437008166 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 177437008167 DDE superfamily endonuclease; Region: DDE_5; cl17874 177437008168 DDE superfamily endonuclease; Region: DDE_5; cl17874 177437008169 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 177437008170 Putative transposase; Region: Y2_Tnp; pfam04986 177437008171 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 177437008172 active site 177437008173 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 177437008174 Transposase [DNA replication, recombination, and repair]; Region: COG5421 177437008175 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 177437008176 Bacterial sugar transferase; Region: Bac_transf; pfam02397 177437008177 VanZ like family; Region: VanZ; cl01971 177437008178 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 177437008179 Hpr binding site; other site 177437008180 active site 177437008181 homohexamer subunit interaction site [polypeptide binding]; other site 177437008182 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 177437008183 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 177437008184 Catalytic site [active] 177437008185 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 177437008186 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437008187 Walker A/P-loop; other site 177437008188 ATP binding site [chemical binding]; other site 177437008189 Q-loop/lid; other site 177437008190 ABC transporter signature motif; other site 177437008191 Walker B; other site 177437008192 D-loop; other site 177437008193 H-loop/switch region; other site 177437008194 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 177437008195 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 177437008196 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 177437008197 SLBB domain; Region: SLBB; pfam10531 177437008198 SLBB domain; Region: SLBB; pfam10531 177437008199 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 177437008200 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 177437008201 Chain length determinant protein; Region: Wzz; cl15801 177437008202 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 177437008203 O-Antigen ligase; Region: Wzy_C; pfam04932 177437008204 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 177437008205 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437008206 binding surface 177437008207 TPR motif; other site 177437008208 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 177437008209 TPR motif; other site 177437008210 binding surface 177437008211 TPR repeat; Region: TPR_11; pfam13414 177437008212 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 177437008213 HAMP domain; Region: HAMP; pfam00672 177437008214 TPR repeat; Region: TPR_11; pfam13414 177437008215 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 177437008216 binding surface 177437008217 TPR motif; other site 177437008218 TPR repeat; Region: TPR_11; pfam13414 177437008219 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 177437008220 binding surface 177437008221 TPR motif; other site 177437008222 Sporulation related domain; Region: SPOR; pfam05036 177437008223 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 177437008224 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; cl17915 177437008225 active site 177437008226 motif I; other site 177437008227 motif II; other site 177437008228 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 177437008229 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 177437008230 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 177437008231 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 177437008232 generic binding surface II; other site 177437008233 generic binding surface I; other site 177437008234 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 177437008235 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 177437008236 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 177437008237 substrate binding pocket [chemical binding]; other site 177437008238 chain length determination region; other site 177437008239 substrate-Mg2+ binding site; other site 177437008240 catalytic residues [active] 177437008241 aspartate-rich region 1; other site 177437008242 active site lid residues [active] 177437008243 aspartate-rich region 2; other site 177437008244 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 177437008245 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 177437008246 TPP-binding site; other site 177437008247 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 177437008248 PYR/PP interface [polypeptide binding]; other site 177437008249 dimer interface [polypeptide binding]; other site 177437008250 TPP binding site [chemical binding]; other site 177437008251 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177437008252 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 177437008253 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 177437008254 RNA binding surface [nucleotide binding]; other site 177437008255 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 177437008256 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 177437008257 elongation factor G; Reviewed; Region: PRK12740 177437008258 G1 box; other site 177437008259 putative GEF interaction site [polypeptide binding]; other site 177437008260 GTP/Mg2+ binding site [chemical binding]; other site 177437008261 Switch I region; other site 177437008262 G2 box; other site 177437008263 G3 box; other site 177437008264 Switch II region; other site 177437008265 G4 box; other site 177437008266 G5 box; other site 177437008267 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 177437008268 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 177437008269 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 177437008270 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 177437008271 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 177437008272 NAD(P) binding site [chemical binding]; other site 177437008273 homotetramer interface [polypeptide binding]; other site 177437008274 homodimer interface [polypeptide binding]; other site 177437008275 active site 177437008276 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 177437008277 putative hydrophobic ligand binding site [chemical binding]; other site 177437008278 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 177437008279 Protein export membrane protein; Region: SecD_SecF; cl14618 177437008280 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 177437008281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437008282 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 177437008283 dimerization interface [polypeptide binding]; other site 177437008284 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 177437008285 dimer interface [polypeptide binding]; other site 177437008286 phosphorylation site [posttranslational modification] 177437008287 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 177437008288 ATP binding site [chemical binding]; other site 177437008289 Mg2+ binding site [ion binding]; other site 177437008290 G-X-G motif; other site 177437008291 Response regulator receiver domain; Region: Response_reg; pfam00072 177437008292 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437008293 active site 177437008294 phosphorylation site [posttranslational modification] 177437008295 intermolecular recognition site; other site 177437008296 dimerization interface [polypeptide binding]; other site 177437008297 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 177437008298 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 177437008299 ATP binding site [chemical binding]; other site 177437008300 active site 177437008301 substrate binding site [chemical binding]; other site 177437008302 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 177437008303 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437008304 Cysteine-rich domain; Region: CCG; pfam02754 177437008305 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 177437008306 heme-binding residues [chemical binding]; other site 177437008307 Response regulator receiver domain; Region: Response_reg; pfam00072 177437008308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437008309 active site 177437008310 phosphorylation site [posttranslational modification] 177437008311 intermolecular recognition site; other site 177437008312 dimerization interface [polypeptide binding]; other site 177437008313 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 177437008314 dimerization interface [polypeptide binding]; other site 177437008315 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437008316 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 177437008317 putative active site [active] 177437008318 heme pocket [chemical binding]; other site 177437008319 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 177437008320 dimer interface [polypeptide binding]; other site 177437008321 phosphorylation site [posttranslational modification] 177437008322 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 177437008323 ATP binding site [chemical binding]; other site 177437008324 Mg2+ binding site [ion binding]; other site 177437008325 G-X-G motif; other site 177437008326 Response regulator receiver domain; Region: Response_reg; pfam00072 177437008327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437008328 active site 177437008329 phosphorylation site [posttranslational modification] 177437008330 intermolecular recognition site; other site 177437008331 dimerization interface [polypeptide binding]; other site 177437008332 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437008333 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 177437008334 ATP binding site [chemical binding]; other site 177437008335 Mg2+ binding site [ion binding]; other site 177437008336 G-X-G motif; other site 177437008337 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 177437008338 Coenzyme A binding pocket [chemical binding]; other site 177437008339 Family of unknown function (DUF490); Region: DUF490; pfam04357 177437008340 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 177437008341 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177437008342 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177437008343 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177437008344 Surface antigen; Region: Bac_surface_Ag; pfam01103 177437008345 Protein of unknown function, DUF399; Region: DUF399; pfam04187 177437008346 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 177437008347 DNA topoisomerase III; Provisional; Region: PRK07726 177437008348 active site 177437008349 putative interdomain interaction site [polypeptide binding]; other site 177437008350 putative metal-binding site [ion binding]; other site 177437008351 putative nucleotide binding site [chemical binding]; other site 177437008352 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 177437008353 DNA binding groove [nucleotide binding] 177437008354 domain I; other site 177437008355 phosphate binding site [ion binding]; other site 177437008356 domain II; other site 177437008357 domain III; other site 177437008358 nucleotide binding site [chemical binding]; other site 177437008359 catalytic site [active] 177437008360 domain IV; other site 177437008361 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 177437008362 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 177437008363 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 177437008364 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 177437008365 Escherichia coli YaeB and related proteins; Region: UPF0066; cl00749 177437008366 homodimer interaction site [polypeptide binding]; other site 177437008367 cofactor binding site; other site 177437008368 short chain dehydrogenase; Provisional; Region: PRK08339 177437008369 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 177437008370 putative NAD(P) binding site [chemical binding]; other site 177437008371 putative active site [active] 177437008372 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 177437008373 Transglycosylase; Region: Transgly; cl17702 177437008374 Protein of unknown function, DUF547; Region: DUF547; pfam04784 177437008375 BCCT family transporter; Region: BCCT; cl00569 177437008376 putative active site [active] 177437008377 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 177437008378 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 177437008379 active site 177437008380 Zn binding site [ion binding]; other site 177437008381 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 177437008382 active site 177437008383 Zn binding site [ion binding]; other site 177437008384 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 177437008385 active site 177437008386 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 177437008387 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 177437008388 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 177437008389 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 177437008390 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 177437008391 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 177437008392 B1 nucleotide binding pocket [chemical binding]; other site 177437008393 B2 nucleotide binding pocket [chemical binding]; other site 177437008394 CAS motifs; other site 177437008395 active site 177437008396 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 177437008397 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 177437008398 active site 177437008399 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437008400 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 177437008401 ligand binding site [chemical binding]; other site 177437008402 flexible hinge region; other site 177437008403 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 177437008404 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 177437008405 active site 177437008406 ATP binding site [chemical binding]; other site 177437008407 substrate binding site [chemical binding]; other site 177437008408 activation loop (A-loop); other site 177437008409 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 177437008410 AAA domain; Region: AAA_22; pfam13401 177437008411 Integrase core domain; Region: rve; pfam00665 177437008412 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437008413 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 177437008414 Double zinc ribbon; Region: DZR; pfam12773 177437008415 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 177437008416 cyclase homology domain; Region: CHD; cd07302 177437008417 nucleotidyl binding site; other site 177437008418 metal binding site [ion binding]; metal-binding site 177437008419 dimer interface [polypeptide binding]; other site 177437008420 AAA ATPase domain; Region: AAA_16; pfam13191 177437008421 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437008422 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437008423 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437008424 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177437008425 excinuclease ABC subunit B; Provisional; Region: PRK05298 177437008426 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 177437008427 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 177437008428 nucleotide binding region [chemical binding]; other site 177437008429 ATP-binding site [chemical binding]; other site 177437008430 Ultra-violet resistance protein B; Region: UvrB; pfam12344 177437008431 excinuclease ABC subunit B; Provisional; Region: PRK05298 177437008432 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 177437008433 active site 177437008434 catalytic triad [active] 177437008435 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 177437008436 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 177437008437 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 177437008438 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 177437008439 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 177437008440 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 177437008441 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 177437008442 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 177437008443 Int/Topo IB signature motif; other site 177437008444 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 177437008445 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 177437008446 active site 177437008447 DNA binding site [nucleotide binding] 177437008448 Int/Topo IB signature motif; other site 177437008449 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 177437008450 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 177437008451 active site 177437008452 DNA binding site [nucleotide binding] 177437008453 Int/Topo IB signature motif; other site 177437008454 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 177437008455 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 177437008456 putative active site [active] 177437008457 putative NTP binding site [chemical binding]; other site 177437008458 putative nucleic acid binding site [nucleotide binding]; other site 177437008459 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 177437008460 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 177437008461 putative active site [active] 177437008462 putative NTP binding site [chemical binding]; other site 177437008463 putative nucleic acid binding site [nucleotide binding]; other site 177437008464 Peptidase S8 family domain in Thermitase-like proteins; Region: Peptidases_S8_Thermitase_like; cd07484 177437008465 active site 177437008466 catalytic triad [active] 177437008467 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 177437008468 Transposase IS200 like; Region: Y1_Tnp; pfam01797 177437008469 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 177437008470 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 177437008471 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 177437008472 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 177437008473 AAA domain; Region: AAA_30; pfam13604 177437008474 Family description; Region: UvrD_C_2; pfam13538 177437008475 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 177437008476 Part of AAA domain; Region: AAA_19; pfam13245 177437008477 Family description; Region: UvrD_C_2; pfam13538 177437008478 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 177437008479 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 177437008480 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 177437008481 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 177437008482 TPR motif; other site 177437008483 binding surface 177437008484 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 177437008485 binding surface 177437008486 TPR motif; other site 177437008487 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 177437008488 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 177437008489 active site 177437008490 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 177437008491 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 177437008492 ATP binding site [chemical binding]; other site 177437008493 putative Mg++ binding site [ion binding]; other site 177437008494 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 177437008495 nucleotide binding region [chemical binding]; other site 177437008496 ATP-binding site [chemical binding]; other site 177437008497 Helicase associated domain (HA2); Region: HA2; pfam04408 177437008498 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 177437008499 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177437008500 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437008501 Walker A/P-loop; other site 177437008502 ATP binding site [chemical binding]; other site 177437008503 Q-loop/lid; other site 177437008504 ABC transporter signature motif; other site 177437008505 Walker B; other site 177437008506 D-loop; other site 177437008507 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 177437008508 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 177437008509 NMT1/THI5 like; Region: NMT1; pfam09084 177437008510 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 177437008511 catalytic loop [active] 177437008512 iron binding site [ion binding]; other site 177437008513 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 177437008514 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 177437008515 4Fe-4S binding domain; Region: Fer4; pfam00037 177437008516 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 177437008517 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 177437008518 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 177437008519 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 177437008520 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437008521 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437008522 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 177437008523 TRAM domain; Region: TRAM; cl01282 177437008524 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 177437008525 S-adenosylmethionine binding site [chemical binding]; other site 177437008526 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 177437008527 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 177437008528 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 177437008529 competence damage-inducible protein A; Provisional; Region: PRK00549 177437008530 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 177437008531 putative MPT binding site; other site 177437008532 Competence-damaged protein; Region: CinA; pfam02464 177437008533 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 177437008534 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 177437008535 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 177437008536 Peptidase family M23; Region: Peptidase_M23; pfam01551 177437008537 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 177437008538 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 177437008539 ATP binding site [chemical binding]; other site 177437008540 putative Mg++ binding site [ion binding]; other site 177437008541 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 177437008542 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; cl17351 177437008543 nucleotide binding region [chemical binding]; other site 177437008544 ATP-binding site [chemical binding]; other site 177437008545 Uncharacterized conserved protein [Function unknown]; Region: COG2127 177437008546 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 177437008547 Clp amino terminal domain; Region: Clp_N; pfam02861 177437008548 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 177437008549 Walker A motif; other site 177437008550 ATP binding site [chemical binding]; other site 177437008551 Walker B motif; other site 177437008552 arginine finger; other site 177437008553 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 177437008554 Walker A motif; other site 177437008555 ATP binding site [chemical binding]; other site 177437008556 Walker B motif; other site 177437008557 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 177437008558 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 177437008559 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 177437008560 Ligand Binding Site [chemical binding]; other site 177437008561 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 177437008562 DctM-like transporters; Region: DctM; pfam06808 177437008563 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 177437008564 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 177437008565 membrane-bound complex binding site; other site 177437008566 4Fe-4S binding domain; Region: Fer4; cl02805 177437008567 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 177437008568 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 177437008569 dimer interface [polypeptide binding]; other site 177437008570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437008571 catalytic residue [active] 177437008572 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 177437008573 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177437008574 active site 177437008575 HIGH motif; other site 177437008576 nucleotide binding site [chemical binding]; other site 177437008577 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177437008578 KMSKS motif; other site 177437008579 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 177437008580 tRNA binding surface [nucleotide binding]; other site 177437008581 anticodon binding site; other site 177437008582 thymidylate kinase; Validated; Region: tmk; PRK00698 177437008583 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 177437008584 TMP-binding site; other site 177437008585 ATP-binding site [chemical binding]; other site 177437008586 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 177437008587 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 177437008588 Organic solvent tolerance protein; Region: OstA_C; pfam04453 177437008589 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; Region: NGN_SP_TaA; cd09893 177437008590 transcriptional activator RfaH; Region: RfaH; TIGR01955 177437008591 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 177437008592 IHF dimer interface [polypeptide binding]; other site 177437008593 IHF - DNA interface [nucleotide binding]; other site 177437008594 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 177437008595 DNA polymerase III subunit delta'; Validated; Region: PRK08485 177437008596 PSP1 C-terminal conserved region; Region: PSP1; cl00770 177437008597 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 177437008598 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 177437008599 active site 177437008600 HIGH motif; other site 177437008601 KMSKS motif; other site 177437008602 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 177437008603 tRNA binding surface [nucleotide binding]; other site 177437008604 anticodon binding site; other site 177437008605 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 177437008606 dimer interface [polypeptide binding]; other site 177437008607 putative tRNA-binding site [nucleotide binding]; other site 177437008608 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 177437008609 glucosamine-fructose-6-phosphate aminotransferase; Provisional; Region: PTZ00394 177437008610 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 177437008611 active site 177437008612 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 177437008613 active site 177437008614 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 177437008615 CTP synthetase; Validated; Region: pyrG; PRK05380 177437008616 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 177437008617 Catalytic site [active] 177437008618 active site 177437008619 UTP binding site [chemical binding]; other site 177437008620 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 177437008621 active site 177437008622 putative oxyanion hole; other site 177437008623 catalytic triad [active] 177437008624 enolase; Provisional; Region: eno; PRK00077 177437008625 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 177437008626 dimer interface [polypeptide binding]; other site 177437008627 metal binding site [ion binding]; metal-binding site 177437008628 substrate binding pocket [chemical binding]; other site 177437008629 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 177437008630 homodimer interaction site [polypeptide binding]; other site 177437008631 cofactor binding site; other site 177437008632 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 177437008633 UDP-glucose 4-epimerase; Region: PLN02240 177437008634 NAD binding site [chemical binding]; other site 177437008635 homodimer interface [polypeptide binding]; other site 177437008636 active site 177437008637 substrate binding site [chemical binding]; other site 177437008638 HEAT repeats; Region: HEAT_2; pfam13646 177437008639 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177437008640 Biotin operon repressor [Transcription]; Region: BirA; COG1654 177437008641 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 177437008642 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 177437008643 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 177437008644 BioY family; Region: BioY; pfam02632 177437008645 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 177437008646 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 177437008647 Walker A/P-loop; other site 177437008648 ATP binding site [chemical binding]; other site 177437008649 Q-loop/lid; other site 177437008650 ABC transporter signature motif; other site 177437008651 Walker B; other site 177437008652 D-loop; other site 177437008653 H-loop/switch region; other site 177437008654 Cobalt transport protein; Region: CbiQ; cl00463 177437008655 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 177437008656 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 177437008657 active site 177437008658 Riboflavin kinase; Region: Flavokinase; pfam01687 177437008659 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 177437008660 active site 177437008661 catalytic residues [active] 177437008662 metal binding site [ion binding]; metal-binding site 177437008663 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 177437008664 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 177437008665 putative active site [active] 177437008666 substrate binding site [chemical binding]; other site 177437008667 putative cosubstrate binding site; other site 177437008668 catalytic site [active] 177437008669 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 177437008670 substrate binding site [chemical binding]; other site 177437008671 16S rRNA methyltransferase B; Provisional; Region: PRK14902 177437008672 NusB family; Region: NusB; pfam01029 177437008673 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 177437008674 S-adenosylmethionine binding site [chemical binding]; other site 177437008675 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 177437008676 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 177437008677 substrate binding site [chemical binding]; other site 177437008678 hexamer interface [polypeptide binding]; other site 177437008679 metal binding site [ion binding]; metal-binding site 177437008680 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 177437008681 Dehydroquinase class II; Region: DHquinase_II; pfam01220 177437008682 trimer interface [polypeptide binding]; other site 177437008683 active site 177437008684 dimer interface [polypeptide binding]; other site 177437008685 futalosine nucleosidase; Region: fut_nucase; TIGR03664 177437008686 FOG: CBS domain [General function prediction only]; Region: COG0517 177437008687 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 177437008688 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 177437008689 AMMECR1; Region: AMMECR1; pfam01871 177437008690 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 177437008691 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437008692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437008693 active site 177437008694 phosphorylation site [posttranslational modification] 177437008695 intermolecular recognition site; other site 177437008696 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 177437008697 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 177437008698 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437008699 Zn2+ binding site [ion binding]; other site 177437008700 Mg2+ binding site [ion binding]; other site 177437008701 adenylosuccinate lyase; Provisional; Region: PRK09285 177437008702 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 177437008703 tetramer interface [polypeptide binding]; other site 177437008704 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437008705 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 177437008706 active site 177437008707 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 177437008708 IHF dimer interface [polypeptide binding]; other site 177437008709 IHF - DNA interface [nucleotide binding]; other site 177437008710 Methylamine utilisation protein MauE; Region: MauE; pfam07291 177437008711 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 177437008712 active site residue [active] 177437008713 Septum formation initiator; Region: DivIC; pfam04977 177437008714 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 177437008715 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 177437008716 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 177437008717 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 177437008718 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 177437008719 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 177437008720 HIGH motif; other site 177437008721 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 177437008722 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177437008723 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177437008724 active site 177437008725 KMSKS motif; other site 177437008726 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 177437008727 tRNA binding surface [nucleotide binding]; other site 177437008728 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 177437008729 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 177437008730 homodimer interface [polypeptide binding]; other site 177437008731 oligonucleotide binding site [chemical binding]; other site 177437008732 Preprotein translocase subunit; Region: YajC; pfam02699 177437008733 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 177437008734 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 177437008735 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 177437008736 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 177437008737 Protein export membrane protein; Region: SecD_SecF; pfam02355 177437008738 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 177437008739 binding surface 177437008740 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 177437008741 TPR motif; other site 177437008742 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 177437008743 DNA protecting protein DprA; Region: dprA; TIGR00732 177437008744 DNA topoisomerase I; Validated; Region: PRK06599 177437008745 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 177437008746 active site 177437008747 interdomain interaction site; other site 177437008748 putative metal-binding site [ion binding]; other site 177437008749 nucleotide binding site [chemical binding]; other site 177437008750 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 177437008751 domain I; other site 177437008752 DNA binding groove [nucleotide binding] 177437008753 phosphate binding site [ion binding]; other site 177437008754 domain II; other site 177437008755 domain III; other site 177437008756 nucleotide binding site [chemical binding]; other site 177437008757 catalytic site [active] 177437008758 domain IV; other site 177437008759 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 177437008760 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 177437008761 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 177437008762 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 177437008763 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 177437008764 metal ion-dependent adhesion site (MIDAS); other site 177437008765 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437008766 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177437008767 ligand binding site [chemical binding]; other site 177437008768 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 177437008769 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 177437008770 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437008771 Walker A/P-loop; other site 177437008772 ATP binding site [chemical binding]; other site 177437008773 Q-loop/lid; other site 177437008774 ABC transporter signature motif; other site 177437008775 Walker B; other site 177437008776 D-loop; other site 177437008777 H-loop/switch region; other site 177437008778 ABC transporter; Region: ABC_tran_2; pfam12848 177437008779 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177437008780 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 177437008781 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 177437008782 dimer interface [polypeptide binding]; other site 177437008783 conserved gate region; other site 177437008784 putative PBP binding loops; other site 177437008785 ABC-ATPase subunit interface; other site 177437008786 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 177437008787 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 177437008788 dimer interface [polypeptide binding]; other site 177437008789 conserved gate region; other site 177437008790 putative PBP binding loops; other site 177437008791 ABC-ATPase subunit interface; other site 177437008792 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 177437008793 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 177437008794 motif 1; other site 177437008795 active site 177437008796 motif 2; other site 177437008797 motif 3; other site 177437008798 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 177437008799 recombinase A; Provisional; Region: recA; PRK09354 177437008800 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 177437008801 hexamer interface [polypeptide binding]; other site 177437008802 Walker A motif; other site 177437008803 ATP binding site [chemical binding]; other site 177437008804 Walker B motif; other site 177437008805 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 177437008806 tetramer interfaces [polypeptide binding]; other site 177437008807 binuclear metal-binding site [ion binding]; other site 177437008808 Protein of unknown function DUF111; Region: DUF111; pfam01969 177437008809 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 177437008810 peptidase T-like protein; Region: PepT-like; TIGR01883 177437008811 metal binding site [ion binding]; metal-binding site 177437008812 putative dimer interface [polypeptide binding]; other site 177437008813 PAS fold; Region: PAS; pfam00989 177437008814 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 177437008815 putative active site [active] 177437008816 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 177437008817 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 177437008818 Walker A motif; other site 177437008819 ATP binding site [chemical binding]; other site 177437008820 Walker B motif; other site 177437008821 arginine finger; other site 177437008822 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437008823 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 177437008824 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177437008825 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 177437008826 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 177437008827 DctM-like transporters; Region: DctM; pfam06808 177437008828 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 177437008829 classical (c) SDRs; Region: SDR_c; cd05233 177437008830 NAD(P) binding site [chemical binding]; other site 177437008831 active site 177437008832 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 177437008833 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 177437008834 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 177437008835 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 177437008836 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 177437008837 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 177437008838 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437008839 substrate binding pocket [chemical binding]; other site 177437008840 membrane-bound complex binding site; other site 177437008841 hinge residues; other site 177437008842 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 177437008843 PAS fold; Region: PAS_3; pfam08447 177437008844 putative active site [active] 177437008845 heme pocket [chemical binding]; other site 177437008846 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 177437008847 PAS fold; Region: PAS_3; pfam08447 177437008848 putative active site [active] 177437008849 heme pocket [chemical binding]; other site 177437008850 PAS fold; Region: PAS_4; pfam08448 177437008851 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 177437008852 putative active site [active] 177437008853 heme pocket [chemical binding]; other site 177437008854 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 177437008855 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437008856 dimer interface [polypeptide binding]; other site 177437008857 phosphorylation site [posttranslational modification] 177437008858 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 177437008859 ATP binding site [chemical binding]; other site 177437008860 Mg2+ binding site [ion binding]; other site 177437008861 G-X-G motif; other site 177437008862 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437008863 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437008864 active site 177437008865 phosphorylation site [posttranslational modification] 177437008866 intermolecular recognition site; other site 177437008867 dimerization interface [polypeptide binding]; other site 177437008868 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 177437008869 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 177437008870 active site 177437008871 intersubunit interactions; other site 177437008872 catalytic residue [active] 177437008873 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 177437008874 catalytic center binding site [active] 177437008875 ATP binding site [chemical binding]; other site 177437008876 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; cl00065 177437008877 Interdomain contacts; other site 177437008878 Cytokine receptor motif; other site 177437008879 argininosuccinate lyase; Provisional; Region: PRK00855 177437008880 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 177437008881 active sites [active] 177437008882 tetramer interface [polypeptide binding]; other site 177437008883 argininosuccinate synthase; Provisional; Region: PRK13820 177437008884 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 177437008885 ANP binding site [chemical binding]; other site 177437008886 Substrate Binding Site II [chemical binding]; other site 177437008887 Substrate Binding Site I [chemical binding]; other site 177437008888 ornithine carbamoyltransferase; Provisional; Region: PRK00779 177437008889 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 177437008890 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 177437008891 acetylornithine aminotransferase; Provisional; Region: PRK02627 177437008892 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 177437008893 inhibitor-cofactor binding pocket; inhibition site 177437008894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437008895 catalytic residue [active] 177437008896 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 177437008897 feedback inhibition sensing region; other site 177437008898 homohexameric interface [polypeptide binding]; other site 177437008899 nucleotide binding site [chemical binding]; other site 177437008900 N-acetyl-L-glutamate binding site [chemical binding]; other site 177437008901 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 177437008902 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 177437008903 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 177437008904 Walker A motif; other site 177437008905 ATP binding site [chemical binding]; other site 177437008906 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 177437008907 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 177437008908 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 177437008909 active site 177437008910 HslU subunit interaction site [polypeptide binding]; other site 177437008911 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 177437008912 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 177437008913 active site 177437008914 DNA binding site [nucleotide binding] 177437008915 Int/Topo IB signature motif; other site 177437008916 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 177437008917 active site 177437008918 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 177437008919 Flavoprotein; Region: Flavoprotein; pfam02441 177437008920 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 177437008921 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 177437008922 PilX N-terminal; Region: PilX_N; pfam14341 177437008923 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 177437008924 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 177437008925 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 177437008926 Type II transport protein GspH; Region: GspH; pfam12019 177437008927 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 177437008928 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 177437008929 Walker A/P-loop; other site 177437008930 ATP binding site [chemical binding]; other site 177437008931 Q-loop/lid; other site 177437008932 ABC transporter signature motif; other site 177437008933 Walker B; other site 177437008934 D-loop; other site 177437008935 H-loop/switch region; other site 177437008936 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 177437008937 O-Antigen ligase; Region: Wzy_C; pfam04932 177437008938 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437008939 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437008940 active site 177437008941 phosphorylation site [posttranslational modification] 177437008942 intermolecular recognition site; other site 177437008943 dimerization interface [polypeptide binding]; other site 177437008944 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 177437008945 Walker A motif; other site 177437008946 ATP binding site [chemical binding]; other site 177437008947 Walker B motif; other site 177437008948 arginine finger; other site 177437008949 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437008950 dihydroorotase; Validated; Region: pyrC; PRK09357 177437008951 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 177437008952 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 177437008953 active site 177437008954 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 177437008955 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 177437008956 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 177437008957 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 177437008958 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 177437008959 Catalytic site [active] 177437008960 Domain of unknown function DUF39; Region: DUF39; pfam01837 177437008961 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 177437008962 Peptidase family M23; Region: Peptidase_M23; pfam01551 177437008963 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 177437008964 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 177437008965 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 177437008966 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 177437008967 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 177437008968 OstA-like protein; Region: OstA; cl00844 177437008969 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 177437008970 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 177437008971 Walker A/P-loop; other site 177437008972 ATP binding site [chemical binding]; other site 177437008973 Q-loop/lid; other site 177437008974 ABC transporter signature motif; other site 177437008975 Walker B; other site 177437008976 D-loop; other site 177437008977 H-loop/switch region; other site 177437008978 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 177437008979 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 177437008980 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 177437008981 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 177437008982 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 177437008983 30S subunit binding site; other site 177437008984 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 177437008985 active site 177437008986 phosphorylation site [posttranslational modification] 177437008987 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 177437008988 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 177437008989 active pocket/dimerization site; other site 177437008990 active site 177437008991 phosphorylation site [posttranslational modification] 177437008992 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 177437008993 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 177437008994 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 177437008995 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 177437008996 triosephosphate isomerase; Provisional; Region: PRK14565 177437008997 substrate binding site [chemical binding]; other site 177437008998 dimer interface [polypeptide binding]; other site 177437008999 catalytic triad [active] 177437009000 Preprotein translocase SecG subunit; Region: SecG; pfam03840 177437009001 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 177437009002 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 177437009003 Walker A motif; other site 177437009004 ATP binding site [chemical binding]; other site 177437009005 Walker B motif; other site 177437009006 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 177437009007 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 177437009008 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 177437009009 FeS/SAM binding site; other site 177437009010 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 177437009011 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 177437009012 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; cd00384 177437009013 dimer interface [polypeptide binding]; other site 177437009014 active site 177437009015 Schiff base residues; other site 177437009016 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 177437009017 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 177437009018 FeS/SAM binding site; other site 177437009019 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 177437009020 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 177437009021 active site 177437009022 ADP/pyrophosphate binding site [chemical binding]; other site 177437009023 allosteric effector site; other site 177437009024 dimerization interface [polypeptide binding]; other site 177437009025 fructose-1,6-bisphosphate binding site; other site 177437009026 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 177437009027 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437009028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437009029 metal binding site [ion binding]; metal-binding site 177437009030 active site 177437009031 I-site; other site 177437009032 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 177437009033 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 177437009034 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 177437009035 YebG protein; Region: YebG; pfam07130 177437009036 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437009037 putative substrate translocation pore; other site 177437009038 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 177437009039 Histidine kinase; Region: HisKA_3; pfam07730 177437009040 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 177437009041 ATP binding site [chemical binding]; other site 177437009042 Mg2+ binding site [ion binding]; other site 177437009043 G-X-G motif; other site 177437009044 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177437009045 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437009046 active site 177437009047 phosphorylation site [posttranslational modification] 177437009048 intermolecular recognition site; other site 177437009049 dimerization interface [polypeptide binding]; other site 177437009050 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 177437009051 DNA binding residues [nucleotide binding] 177437009052 dimerization interface [polypeptide binding]; other site 177437009053 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 177437009054 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 177437009055 nucleotide binding pocket [chemical binding]; other site 177437009056 K-X-D-G motif; other site 177437009057 catalytic site [active] 177437009058 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 177437009059 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 177437009060 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 177437009061 Dimer interface [polypeptide binding]; other site 177437009062 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 177437009063 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 177437009064 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 177437009065 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 177437009066 dimer interface [polypeptide binding]; other site 177437009067 motif 1; other site 177437009068 active site 177437009069 motif 2; other site 177437009070 motif 3; other site 177437009071 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 177437009072 Recombination protein O N terminal; Region: RecO_N; pfam11967 177437009073 DNA repair protein RecO; Region: reco; TIGR00613 177437009074 Recombination protein O C terminal; Region: RecO_C; pfam02565 177437009075 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 177437009076 MgtE intracellular N domain; Region: MgtE_N; smart00924 177437009077 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 177437009078 Divalent cation transporter; Region: MgtE; pfam01769 177437009079 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 177437009080 SurA N-terminal domain; Region: SurA_N; pfam09312 177437009081 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 177437009082 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 177437009083 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 177437009084 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 177437009085 ATP binding site [chemical binding]; other site 177437009086 putative Mg++ binding site [ion binding]; other site 177437009087 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 177437009088 nucleotide binding region [chemical binding]; other site 177437009089 ATP-binding site [chemical binding]; other site 177437009090 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 177437009091 hypothetical protein; Provisional; Region: PRK10279 177437009092 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 177437009093 active site 177437009094 nucleophile elbow; other site 177437009095 Uncharacterized conserved protein [Function unknown]; Region: COG1359 177437009096 DsrE/DsrF-like family; Region: DrsE; cl00672 177437009097 Transcriptional regulators [Transcription]; Region: FadR; COG2186 177437009098 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437009099 DNA-binding site [nucleotide binding]; DNA binding site 177437009100 FCD domain; Region: FCD; pfam07729 177437009101 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 177437009102 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437009103 Cysteine-rich domain; Region: CCG; pfam02754 177437009104 Cysteine-rich domain; Region: CCG; pfam02754 177437009105 FAD binding domain; Region: FAD_binding_4; pfam01565 177437009106 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 177437009107 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 177437009108 L-lactate permease; Region: Lactate_perm; cl00701 177437009109 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 177437009110 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 177437009111 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 177437009112 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 177437009113 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437009114 Cysteine-rich domain; Region: CCG; pfam02754 177437009115 Cysteine-rich domain; Region: CCG; pfam02754 177437009116 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 177437009117 EamA-like transporter family; Region: EamA; pfam00892 177437009118 EamA-like transporter family; Region: EamA; pfam00892 177437009119 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 177437009120 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 177437009121 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 177437009122 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 177437009123 nudix motif; other site 177437009124 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 177437009125 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 177437009126 Walker A motif; other site 177437009127 ATP binding site [chemical binding]; other site 177437009128 Walker B motif; other site 177437009129 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 177437009130 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437009131 Uncharacterized conserved protein (DUF2293); Region: DUF2293; cl02373 177437009132 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 177437009133 amino acid carrier protein; Region: agcS; TIGR00835 177437009134 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 177437009135 guanine deaminase; Region: guan_deamin; TIGR02967 177437009136 active site 177437009137 Rhomboid family; Region: Rhomboid; pfam01694 177437009138 Transposase; Region: DEDD_Tnp_IS110; pfam01548 177437009139 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 177437009140 PBP superfamily domain; Region: PBP_like_2; cl17296 177437009141 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 177437009142 dimer interface [polypeptide binding]; other site 177437009143 conserved gate region; other site 177437009144 putative PBP binding loops; other site 177437009145 ABC-ATPase subunit interface; other site 177437009146 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 177437009147 dimer interface [polypeptide binding]; other site 177437009148 conserved gate region; other site 177437009149 putative PBP binding loops; other site 177437009150 ABC-ATPase subunit interface; other site 177437009151 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 177437009152 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177437009153 Walker A/P-loop; other site 177437009154 ATP binding site [chemical binding]; other site 177437009155 Q-loop/lid; other site 177437009156 ABC transporter signature motif; other site 177437009157 Walker B; other site 177437009158 D-loop; other site 177437009159 H-loop/switch region; other site 177437009160 Putative Fe-S cluster; Region: FeS; cl17515 177437009161 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 177437009162 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 177437009163 active site 177437009164 Dicarboxylate transport; Region: DctA-YdbH; cl14674 177437009165 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 177437009166 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 177437009167 dimer interface [polypeptide binding]; other site 177437009168 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 177437009169 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 177437009170 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177437009171 Walker A/P-loop; other site 177437009172 ATP binding site [chemical binding]; other site 177437009173 Q-loop/lid; other site 177437009174 ABC transporter signature motif; other site 177437009175 Walker B; other site 177437009176 D-loop; other site 177437009177 H-loop/switch region; other site 177437009178 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 177437009179 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 177437009180 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177437009181 Walker A/P-loop; other site 177437009182 ATP binding site [chemical binding]; other site 177437009183 Q-loop/lid; other site 177437009184 ABC transporter signature motif; other site 177437009185 Walker B; other site 177437009186 D-loop; other site 177437009187 H-loop/switch region; other site 177437009188 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 177437009189 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 177437009190 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 177437009191 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 177437009192 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 177437009193 flagellar motor protein MotS; Reviewed; Region: PRK06925 177437009194 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437009195 ligand binding site [chemical binding]; other site 177437009196 PilZ domain; Region: PilZ; pfam07238 177437009197 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 177437009198 active site 177437009199 DNA polymerase IV; Validated; Region: PRK02406 177437009200 DNA binding site [nucleotide binding] 177437009201 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 177437009202 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 177437009203 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 177437009204 PAS domain S-box; Region: sensory_box; TIGR00229 177437009205 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 177437009206 putative active site [active] 177437009207 heme pocket [chemical binding]; other site 177437009208 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 177437009209 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 177437009210 dimer interface [polypeptide binding]; other site 177437009211 phosphorylation site [posttranslational modification] 177437009212 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 177437009213 ATP binding site [chemical binding]; other site 177437009214 Mg2+ binding site [ion binding]; other site 177437009215 G-X-G motif; other site 177437009216 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 177437009217 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 177437009218 acyl-activating enzyme (AAE) consensus motif; other site 177437009219 putative AMP binding site [chemical binding]; other site 177437009220 putative active site [active] 177437009221 putative CoA binding site [chemical binding]; other site 177437009222 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 177437009223 acetyl-CoA synthetase; Provisional; Region: PRK00174 177437009224 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437009225 acyl-activating enzyme (AAE) consensus motif; other site 177437009226 AMP binding site [chemical binding]; other site 177437009227 active site 177437009228 CoA binding site [chemical binding]; other site 177437009229 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 177437009230 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 177437009231 acyl-activating enzyme (AAE) consensus motif; other site 177437009232 putative AMP binding site [chemical binding]; other site 177437009233 putative active site [active] 177437009234 putative CoA binding site [chemical binding]; other site 177437009235 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 177437009236 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437009237 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 177437009238 active site 177437009239 putative substrate binding region [chemical binding]; other site 177437009240 GAF domain; Region: GAF; cl17456 177437009241 PAS domain S-box; Region: sensory_box; TIGR00229 177437009242 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 177437009243 putative active site [active] 177437009244 heme pocket [chemical binding]; other site 177437009245 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 177437009246 dimer interface [polypeptide binding]; other site 177437009247 phosphorylation site [posttranslational modification] 177437009248 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 177437009249 ATP binding site [chemical binding]; other site 177437009250 Mg2+ binding site [ion binding]; other site 177437009251 G-X-G motif; other site 177437009252 Response regulator receiver domain; Region: Response_reg; pfam00072 177437009253 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437009254 active site 177437009255 phosphorylation site [posttranslational modification] 177437009256 intermolecular recognition site; other site 177437009257 dimerization interface [polypeptide binding]; other site 177437009258 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 177437009259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 177437009260 Peptidase family M48; Region: Peptidase_M48; cl12018 177437009261 TPR repeat; Region: TPR_11; pfam13414 177437009262 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 177437009263 binding surface 177437009264 TPR motif; other site 177437009265 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437009266 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 177437009267 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 177437009268 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 177437009269 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 177437009270 active site 177437009271 Zn binding site [ion binding]; other site 177437009272 FOG: CBS domain [General function prediction only]; Region: COG0517 177437009273 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 177437009274 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 177437009275 putative chaperone; Provisional; Region: PRK11678 177437009276 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 177437009277 nucleotide binding site [chemical binding]; other site 177437009278 putative NEF/HSP70 interaction site [polypeptide binding]; other site 177437009279 SBD interface [polypeptide binding]; other site 177437009280 Putative Fe-S cluster; Region: FeS; cl17515 177437009281 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 177437009282 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 177437009283 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 177437009284 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 177437009285 S-adenosylmethionine binding site [chemical binding]; other site 177437009286 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 177437009287 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 177437009288 ATP binding site [chemical binding]; other site 177437009289 putative Mg++ binding site [ion binding]; other site 177437009290 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 177437009291 nucleotide binding region [chemical binding]; other site 177437009292 ATP-binding site [chemical binding]; other site 177437009293 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 177437009294 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 177437009295 Arginase family; Region: Arginase; cd09989 177437009296 active site 177437009297 Mn binding site [ion binding]; other site 177437009298 oligomer interface [polypeptide binding]; other site 177437009299 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 177437009300 catalytic core [active] 177437009301 Phosphoglycerate mutase family; Region: PGAM; smart00855 177437009302 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 177437009303 tRNA mo(5)U34 methyltransferase; Provisional; Region: PRK15068 177437009304 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177437009305 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 177437009306 S-adenosylmethionine binding site [chemical binding]; other site 177437009307 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 177437009308 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 177437009309 putative ATP binding site [chemical binding]; other site 177437009310 putative substrate interface [chemical binding]; other site 177437009311 Response regulator receiver domain; Region: Response_reg; pfam00072 177437009312 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437009313 active site 177437009314 phosphorylation site [posttranslational modification] 177437009315 intermolecular recognition site; other site 177437009316 dimerization interface [polypeptide binding]; other site 177437009317 Protein of unknown function (DUF342); Region: DUF342; pfam03961 177437009318 Response regulator receiver domain; Region: Response_reg; pfam00072 177437009319 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437009320 active site 177437009321 phosphorylation site [posttranslational modification] 177437009322 intermolecular recognition site; other site 177437009323 dimerization interface [polypeptide binding]; other site 177437009324 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 177437009325 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 177437009326 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177437009327 glycogen synthase; Provisional; Region: glgA; PRK00654 177437009328 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 177437009329 ADP-binding pocket [chemical binding]; other site 177437009330 homodimer interface [polypeptide binding]; other site 177437009331 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 177437009332 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 177437009333 ligand binding site; other site 177437009334 oligomer interface; other site 177437009335 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 177437009336 dimer interface [polypeptide binding]; other site 177437009337 N-terminal domain interface [polypeptide binding]; other site 177437009338 sulfate 1 binding site; other site 177437009339 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437009340 DNA-binding site [nucleotide binding]; DNA binding site 177437009341 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 177437009342 FCD domain; Region: FCD; pfam07729 177437009343 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 177437009344 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 177437009345 PYR/PP interface [polypeptide binding]; other site 177437009346 dimer interface [polypeptide binding]; other site 177437009347 TPP binding site [chemical binding]; other site 177437009348 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 177437009349 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 177437009350 TPP-binding site [chemical binding]; other site 177437009351 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 177437009352 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 177437009353 DctM-like transporters; Region: DctM; pfam06808 177437009354 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 177437009355 hydroxyglutarate oxidase; Provisional; Region: PRK11728 177437009356 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 177437009357 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 177437009358 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 177437009359 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 177437009360 hypothetical protein; Provisional; Region: PRK07475 177437009361 Rubrerythrin [Energy production and conversion]; Region: COG1592 177437009362 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 177437009363 binuclear metal center [ion binding]; other site 177437009364 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 177437009365 iron binding site [ion binding]; other site 177437009366 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 177437009367 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437009368 Coenzyme A binding pocket [chemical binding]; other site 177437009369 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 177437009370 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 177437009371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437009372 homodimer interface [polypeptide binding]; other site 177437009373 catalytic residue [active] 177437009374 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 177437009375 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 177437009376 non-specific DNA binding site [nucleotide binding]; other site 177437009377 salt bridge; other site 177437009378 sequence-specific DNA binding site [nucleotide binding]; other site 177437009379 HipA N-terminal domain; Region: Couple_hipA; cl11853 177437009380 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 177437009381 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 177437009382 ATP binding site [chemical binding]; other site 177437009383 putative Mg++ binding site [ion binding]; other site 177437009384 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 177437009385 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 177437009386 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 177437009387 dimer interface [polypeptide binding]; other site 177437009388 phosphorylation site [posttranslational modification] 177437009389 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 177437009390 ATP binding site [chemical binding]; other site 177437009391 Mg2+ binding site [ion binding]; other site 177437009392 G-X-G motif; other site 177437009393 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177437009394 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 177437009395 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 177437009396 SpoVR like protein; Region: SpoVR; pfam04293 177437009397 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 177437009398 hypothetical protein; Provisional; Region: PRK05325 177437009399 PrkA AAA domain; Region: AAA_PrkA; smart00763 177437009400 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 177437009401 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 177437009402 DNA binding residues [nucleotide binding] 177437009403 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 177437009404 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 177437009405 NMT1-like family; Region: NMT1_2; pfam13379 177437009406 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437009407 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437009408 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 177437009409 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 177437009410 substrate binding site [chemical binding]; other site 177437009411 oxyanion hole (OAH) forming residues; other site 177437009412 trimer interface [polypeptide binding]; other site 177437009413 short chain dehydrogenase; Provisional; Region: PRK07035 177437009414 classical (c) SDRs; Region: SDR_c; cd05233 177437009415 NAD(P) binding site [chemical binding]; other site 177437009416 active site 177437009417 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 177437009418 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 177437009419 FeS/SAM binding site; other site 177437009420 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 177437009421 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 177437009422 substrate binding site; other site 177437009423 dimer interface; other site 177437009424 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; cl00206 177437009425 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 177437009426 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 177437009427 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 177437009428 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437009429 Walker A/P-loop; other site 177437009430 ATP binding site [chemical binding]; other site 177437009431 Q-loop/lid; other site 177437009432 ABC transporter signature motif; other site 177437009433 Walker B; other site 177437009434 D-loop; other site 177437009435 H-loop/switch region; other site 177437009436 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 177437009437 Putative zinc ribbon domain; Region: DUF164; pfam02591 177437009438 Uncharacterized conserved protein [Function unknown]; Region: COG0327 177437009439 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 177437009440 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 177437009441 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 177437009442 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 177437009443 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177437009444 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 177437009445 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 177437009446 DNA binding residues [nucleotide binding] 177437009447 DNA primase; Validated; Region: dnaG; PRK05667 177437009448 CHC2 zinc finger; Region: zf-CHC2; pfam01807 177437009449 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 177437009450 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 177437009451 active site 177437009452 metal binding site [ion binding]; metal-binding site 177437009453 interdomain interaction site; other site 177437009454 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 177437009455 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 177437009456 putative active site pocket [active] 177437009457 4-fold oligomerization interface [polypeptide binding]; other site 177437009458 metal binding residues [ion binding]; metal-binding site 177437009459 3-fold/trimer interface [polypeptide binding]; other site 177437009460 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 177437009461 Na binding site [ion binding]; other site 177437009462 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 177437009463 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 177437009464 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177437009465 TrkA-C domain; Region: TrkA_C; pfam02080 177437009466 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 177437009467 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 177437009468 putative active site [active] 177437009469 Zn binding site [ion binding]; other site 177437009470 SprA-related family; Region: SprA-related; pfam12118 177437009471 Isochorismatase family; Region: Isochorismatase; pfam00857 177437009472 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 177437009473 catalytic triad [active] 177437009474 dimer interface [polypeptide binding]; other site 177437009475 conserved cis-peptide bond; other site 177437009476 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 177437009477 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 177437009478 heterodimer interface [polypeptide binding]; other site 177437009479 active site 177437009480 FMN binding site [chemical binding]; other site 177437009481 homodimer interface [polypeptide binding]; other site 177437009482 substrate binding site [chemical binding]; other site 177437009483 Oxygen tolerance; Region: BatD; pfam13584 177437009484 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 177437009485 binding surface 177437009486 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437009487 TPR motif; other site 177437009488 von Willebrand factor type A domain; Region: VWA_2; pfam13519 177437009489 metal ion-dependent adhesion site (MIDAS); other site 177437009490 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 177437009491 TPR motif; other site 177437009492 binding surface 177437009493 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437009494 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 177437009495 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 177437009496 metal ion-dependent adhesion site (MIDAS); other site 177437009497 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 177437009498 Protein of unknown function DUF58; Region: DUF58; pfam01882 177437009499 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 177437009500 metal ion-dependent adhesion site (MIDAS); other site 177437009501 MoxR-like ATPases [General function prediction only]; Region: COG0714 177437009502 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 177437009503 Walker A motif; other site 177437009504 ATP binding site [chemical binding]; other site 177437009505 Walker B motif; other site 177437009506 arginine finger; other site 177437009507 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437009508 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437009509 Phosphagen (guanidino) kinases mostly found in eukaryotes; Region: eukaryotic_phosphagen_kinases; cd07931 177437009510 phosphagen binding site; other site 177437009511 ADP binding site [chemical binding]; other site 177437009512 substrate specificity loop; other site 177437009513 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 177437009514 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437009515 Walker A/P-loop; other site 177437009516 ATP binding site [chemical binding]; other site 177437009517 Q-loop/lid; other site 177437009518 ABC transporter signature motif; other site 177437009519 Walker B; other site 177437009520 D-loop; other site 177437009521 H-loop/switch region; other site 177437009522 FOG: CBS domain [General function prediction only]; Region: COG0517 177437009523 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 177437009524 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 177437009525 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 177437009526 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 177437009527 dimer interface [polypeptide binding]; other site 177437009528 conserved gate region; other site 177437009529 putative PBP binding loops; other site 177437009530 ABC-ATPase subunit interface; other site 177437009531 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 177437009532 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 177437009533 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 177437009534 putative NAD(P) binding site [chemical binding]; other site 177437009535 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437009536 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 177437009537 dimerization interface [polypeptide binding]; other site 177437009538 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 177437009539 dimer interface [polypeptide binding]; other site 177437009540 phosphorylation site [posttranslational modification] 177437009541 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 177437009542 ATP binding site [chemical binding]; other site 177437009543 G-X-G motif; other site 177437009544 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 177437009545 nucleotide binding site [chemical binding]; other site 177437009546 putative NEF/HSP70 interaction site [polypeptide binding]; other site 177437009547 SBD interface [polypeptide binding]; other site 177437009548 DNA-K related protein; Region: DUF3731; pfam12531 177437009549 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 177437009550 nucleotide binding site [chemical binding]; other site 177437009551 putative NEF/HSP70 interaction site [polypeptide binding]; other site 177437009552 SBD interface [polypeptide binding]; other site 177437009553 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 177437009554 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 177437009555 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 177437009556 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 177437009557 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 177437009558 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 177437009559 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 177437009560 putative NAD(P) binding site [chemical binding]; other site 177437009561 active site 177437009562 putative substrate binding site [chemical binding]; other site 177437009563 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 177437009564 CoA binding domain; Region: CoA_binding; cl17356 177437009565 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 177437009566 NAD(P) binding site [chemical binding]; other site 177437009567 homodimer interface [polypeptide binding]; other site 177437009568 substrate binding site [chemical binding]; other site 177437009569 active site 177437009570 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 177437009571 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 177437009572 Mg++ binding site [ion binding]; other site 177437009573 putative catalytic motif [active] 177437009574 putative substrate binding site [chemical binding]; other site 177437009575 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 177437009576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437009577 NAD(P) binding site [chemical binding]; other site 177437009578 active site 177437009579 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 177437009580 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 177437009581 Probable Catalytic site; other site 177437009582 metal-binding site 177437009583 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 177437009584 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 177437009585 Probable Catalytic site; other site 177437009586 metal-binding site 177437009587 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 177437009588 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437009589 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 177437009590 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 177437009591 Probable Catalytic site; other site 177437009592 metal-binding site 177437009593 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 177437009594 C2 domain; Region: C2; cl14603 177437009595 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 177437009596 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 177437009597 Probable Catalytic site; other site 177437009598 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437009599 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 177437009600 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 177437009601 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 177437009602 active site 177437009603 motif I; other site 177437009604 motif II; other site 177437009605 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 177437009606 GtrA-like protein; Region: GtrA; pfam04138 177437009607 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 177437009608 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 177437009609 Ligand binding site; other site 177437009610 Putative Catalytic site; other site 177437009611 DXD motif; other site 177437009612 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 177437009613 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 177437009614 Ligand binding site; other site 177437009615 Putative Catalytic site; other site 177437009616 DXD motif; other site 177437009617 GeoRSP system radical SAM/SPASM protein; Region: GeoRSP_rSAM; TIGR04303 177437009618 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 177437009619 FeS/SAM binding site; other site 177437009620 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 177437009621 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177437009622 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 177437009623 S-adenosylmethionine binding site [chemical binding]; other site 177437009624 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 177437009625 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 177437009626 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 177437009627 Probable Catalytic site; other site 177437009628 metal-binding site 177437009629 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 177437009630 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 177437009631 S-adenosylmethionine binding site [chemical binding]; other site 177437009632 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 177437009633 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 177437009634 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 177437009635 Walker A/P-loop; other site 177437009636 ATP binding site [chemical binding]; other site 177437009637 Q-loop/lid; other site 177437009638 ABC transporter signature motif; other site 177437009639 Walker B; other site 177437009640 D-loop; other site 177437009641 H-loop/switch region; other site 177437009642 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 177437009643 putative carbohydrate binding site [chemical binding]; other site 177437009644 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 177437009645 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 177437009646 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 177437009647 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 177437009648 active site 177437009649 metal binding site [ion binding]; metal-binding site 177437009650 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 177437009651 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 177437009652 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 177437009653 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 177437009654 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437009655 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437009656 active site 177437009657 phosphorylation site [posttranslational modification] 177437009658 intermolecular recognition site; other site 177437009659 dimerization interface [polypeptide binding]; other site 177437009660 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 177437009661 Walker A motif; other site 177437009662 ATP binding site [chemical binding]; other site 177437009663 Walker B motif; other site 177437009664 arginine finger; other site 177437009665 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 177437009666 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437009667 HAMP domain; Region: HAMP; pfam00672 177437009668 dimerization interface [polypeptide binding]; other site 177437009669 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 177437009670 dimer interface [polypeptide binding]; other site 177437009671 phosphorylation site [posttranslational modification] 177437009672 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 177437009673 ATP binding site [chemical binding]; other site 177437009674 Mg2+ binding site [ion binding]; other site 177437009675 G-X-G motif; other site 177437009676 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177437009677 type II secretion system protein D; Region: type_II_gspD; TIGR02517 177437009678 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 177437009679 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 177437009680 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 177437009681 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 177437009682 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 177437009683 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 177437009684 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 177437009685 general secretion pathway protein J; Validated; Region: PRK08808 177437009686 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 177437009687 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 177437009688 TPR motif; other site 177437009689 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437009690 binding surface 177437009691 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 177437009692 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 177437009693 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 177437009694 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 177437009695 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 177437009696 type II secretion system protein F; Region: GspF; TIGR02120 177437009697 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 177437009698 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 177437009699 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 177437009700 type II secretion system protein E; Region: type_II_gspE; TIGR02533 177437009701 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 177437009702 Walker A motif; other site 177437009703 ATP binding site [chemical binding]; other site 177437009704 Walker B motif; other site 177437009705 spermidine synthase; Provisional; Region: PRK03612 177437009706 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 177437009707 S-adenosylmethionine binding site [chemical binding]; other site 177437009708 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 177437009709 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 177437009710 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 177437009711 oligomer interface [polypeptide binding]; other site 177437009712 putative active site [active] 177437009713 metal binding site [ion binding]; metal-binding site 177437009714 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 177437009715 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 177437009716 putative GTP cyclohydrolase; Provisional; Region: PRK13674 177437009717 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 177437009718 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 177437009719 Ligand Binding Site [chemical binding]; other site 177437009720 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 177437009721 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 177437009722 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 177437009723 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 177437009724 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 177437009725 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 177437009726 Glycoprotease family; Region: Peptidase_M22; pfam00814 177437009727 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 177437009728 Found in ATP-dependent protease La (LON); Region: LON; smart00464 177437009729 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 177437009730 Walker A motif; other site 177437009731 ATP binding site [chemical binding]; other site 177437009732 Walker B motif; other site 177437009733 arginine finger; other site 177437009734 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 177437009735 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 177437009736 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 177437009737 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 177437009738 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 177437009739 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 177437009740 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 177437009741 IHF dimer interface [polypeptide binding]; other site 177437009742 IHF - DNA interface [nucleotide binding]; other site 177437009743 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 177437009744 active site 177437009745 catalytic site [active] 177437009746 substrate binding site [chemical binding]; other site 177437009747 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 177437009748 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 177437009749 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 177437009750 23S rRNA interface [nucleotide binding]; other site 177437009751 L3 interface [polypeptide binding]; other site 177437009752 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 177437009753 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 177437009754 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 177437009755 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 177437009756 Walker A motif; other site 177437009757 ATP binding site [chemical binding]; other site 177437009758 Walker B motif; other site 177437009759 arginine finger; other site 177437009760 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 177437009761 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14603 177437009762 RuvA N terminal domain; Region: RuvA_N; pfam01330 177437009763 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 177437009764 active site 177437009765 putative DNA-binding cleft [nucleotide binding]; other site 177437009766 dimer interface [polypeptide binding]; other site 177437009767 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 177437009768 Tetratricopeptide repeat; Region: TPR_6; pfam13174 177437009769 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177437009770 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437009771 ligand binding site [chemical binding]; other site 177437009772 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 177437009773 TolB amino-terminal domain; Region: TolB_N; pfam04052 177437009774 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 177437009775 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 177437009776 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 177437009777 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 177437009778 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 177437009779 TonB C terminal; Region: TonB_2; pfam13103 177437009780 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 177437009781 TolR protein; Region: tolR; TIGR02801 177437009782 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 177437009783 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 177437009784 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 177437009785 ring oligomerisation interface [polypeptide binding]; other site 177437009786 ATP/Mg binding site [chemical binding]; other site 177437009787 stacking interactions; other site 177437009788 hinge regions; other site 177437009789 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 177437009790 oligomerisation interface [polypeptide binding]; other site 177437009791 mobile loop; other site 177437009792 roof hairpin; other site 177437009793 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 177437009794 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 177437009795 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 177437009796 HflK protein; Region: hflK; TIGR01933 177437009797 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177437009798 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 177437009799 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 177437009800 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 177437009801 active site 177437009802 dimer interface [polypeptide binding]; other site 177437009803 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 177437009804 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 177437009805 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 177437009806 Ferritin-like domain; Region: Ferritin; pfam00210 177437009807 ferroxidase diiron center [ion binding]; other site 177437009808 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 177437009809 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 177437009810 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 177437009811 catalytic loop [active] 177437009812 iron binding site [ion binding]; other site 177437009813 FAD binding domain; Region: FAD_binding_4; pfam01565 177437009814 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 177437009815 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 177437009816 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 177437009817 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437009818 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 177437009819 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; cl00831 177437009820 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 177437009821 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 177437009822 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 177437009823 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437009824 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437009825 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 177437009826 FAD binding site [chemical binding]; other site 177437009827 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 177437009828 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 177437009829 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437009830 putative active site [active] 177437009831 heme pocket [chemical binding]; other site 177437009832 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 177437009833 dimer interface [polypeptide binding]; other site 177437009834 phosphorylation site [posttranslational modification] 177437009835 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 177437009836 ATP binding site [chemical binding]; other site 177437009837 Mg2+ binding site [ion binding]; other site 177437009838 G-X-G motif; other site 177437009839 Response regulator receiver domain; Region: Response_reg; pfam00072 177437009840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437009841 active site 177437009842 phosphorylation site [posttranslational modification] 177437009843 intermolecular recognition site; other site 177437009844 dimerization interface [polypeptide binding]; other site 177437009845 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 177437009846 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 177437009847 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 177437009848 shikimate binding site; other site 177437009849 NAD(P) binding site [chemical binding]; other site 177437009850 Response regulator receiver domain; Region: Response_reg; pfam00072 177437009851 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437009852 active site 177437009853 phosphorylation site [posttranslational modification] 177437009854 intermolecular recognition site; other site 177437009855 dimerization interface [polypeptide binding]; other site 177437009856 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 177437009857 PAS domain; Region: PAS; smart00091 177437009858 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 177437009859 dimer interface [polypeptide binding]; other site 177437009860 phosphorylation site [posttranslational modification] 177437009861 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 177437009862 ATP binding site [chemical binding]; other site 177437009863 Mg2+ binding site [ion binding]; other site 177437009864 G-X-G motif; other site 177437009865 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 177437009866 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 177437009867 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 177437009868 FAD binding site [chemical binding]; other site 177437009869 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 177437009870 Methyl-viologen-reducing hydrogenase, delta subunit; Region: FlpD; pfam02662 177437009871 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437009872 4Fe-4S binding domain; Region: Fer4; pfam00037 177437009873 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 177437009874 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437009875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437009876 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437009877 Heterodisulfide reductase, subunit A and related polyferredoxins [Energy production and conversion]; Region: HdrA; COG1148 177437009878 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437009879 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437009880 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437009881 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 177437009882 FAD binding site [chemical binding]; other site 177437009883 HDOD domain; Region: HDOD; pfam08668 177437009884 GAF domain; Region: GAF_3; pfam13492 177437009885 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 177437009886 dimer interface [polypeptide binding]; other site 177437009887 phosphorylation site [posttranslational modification] 177437009888 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 177437009889 ATP binding site [chemical binding]; other site 177437009890 Mg2+ binding site [ion binding]; other site 177437009891 G-X-G motif; other site 177437009892 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 177437009893 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 177437009894 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 177437009895 P-loop; other site 177437009896 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 177437009897 Predicted methyltransferases [General function prediction only]; Region: COG0313 177437009898 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 177437009899 putative SAM binding site [chemical binding]; other site 177437009900 putative homodimer interface [polypeptide binding]; other site 177437009901 hypothetical protein; Reviewed; Region: PRK12497 177437009902 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 177437009903 RNA/DNA hybrid binding site [nucleotide binding]; other site 177437009904 active site 177437009905 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 177437009906 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 177437009907 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 177437009908 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 177437009909 RimM N-terminal domain; Region: RimM; pfam01782 177437009910 PRC-barrel domain; Region: PRC; pfam05239 177437009911 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 177437009912 hypothetical protein; Provisional; Region: PRK00468 177437009913 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 177437009914 signal recognition particle protein; Provisional; Region: PRK10867 177437009915 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 177437009916 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 177437009917 P loop; other site 177437009918 GTP binding site [chemical binding]; other site 177437009919 Signal peptide binding domain; Region: SRP_SPB; pfam02978 177437009920 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14463 177437009921 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 177437009922 FeS/SAM binding site; other site 177437009923 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 177437009924 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 177437009925 Ligand Binding Site [chemical binding]; other site 177437009926 Domain of unknown function (DUF814); Region: DUF814; pfam05670 177437009927 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 177437009928 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437009929 active site 177437009930 phosphorylation site [posttranslational modification] 177437009931 intermolecular recognition site; other site 177437009932 dimerization interface [polypeptide binding]; other site 177437009933 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 177437009934 NMT1-like family; Region: NMT1_2; pfam13379 177437009935 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 177437009936 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 177437009937 dimer interface [polypeptide binding]; other site 177437009938 conserved gate region; other site 177437009939 putative PBP binding loops; other site 177437009940 ABC-ATPase subunit interface; other site 177437009941 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 177437009942 NMT1-like family; Region: NMT1_2; pfam13379 177437009943 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 177437009944 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 177437009945 Walker A/P-loop; other site 177437009946 ATP binding site [chemical binding]; other site 177437009947 Q-loop/lid; other site 177437009948 ABC transporter signature motif; other site 177437009949 Walker B; other site 177437009950 D-loop; other site 177437009951 H-loop/switch region; other site 177437009952 NMT1-like family; Region: NMT1_2; pfam13379 177437009953 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 177437009954 ABC1 family; Region: ABC1; cl17513 177437009955 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 177437009956 Uncharacterized conserved protein [Function unknown]; Region: COG3937 177437009957 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 177437009958 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 177437009959 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437009960 active site 177437009961 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 177437009962 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 177437009963 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 177437009964 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 177437009965 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 177437009966 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 177437009967 active site 177437009968 Zn binding site [ion binding]; other site 177437009969 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 177437009970 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 177437009971 motif 1; other site 177437009972 dimer interface [polypeptide binding]; other site 177437009973 active site 177437009974 motif 2; other site 177437009975 motif 3; other site 177437009976 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 177437009977 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 177437009978 DNA binding residues [nucleotide binding] 177437009979 Domain of unknown function (DUF4379); Region: DUF4379; pfam14311 177437009980 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 177437009981 ATP-sulfurylase; Region: ATPS; cd00517 177437009982 active site 177437009983 HXXH motif; other site 177437009984 flexible loop; other site 177437009985 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 177437009986 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 177437009987 motif II; other site 177437009988 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 177437009989 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 177437009990 putative RNA binding site [nucleotide binding]; other site 177437009991 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 177437009992 homopentamer interface [polypeptide binding]; other site 177437009993 active site 177437009994 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 177437009995 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 177437009996 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 177437009997 dimerization interface [polypeptide binding]; other site 177437009998 active site 177437009999 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 177437010000 Lumazine binding domain; Region: Lum_binding; pfam00677 177437010001 Lumazine binding domain; Region: Lum_binding; pfam00677 177437010002 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 177437010003 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 177437010004 catalytic motif [active] 177437010005 Zn binding site [ion binding]; other site 177437010006 RibD C-terminal domain; Region: RibD_C; cl17279 177437010007 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 177437010008 ATP cone domain; Region: ATP-cone; pfam03477 177437010009 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 177437010010 catalytic motif [active] 177437010011 Zn binding site [ion binding]; other site 177437010012 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 177437010013 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 177437010014 dimer interface [polypeptide binding]; other site 177437010015 active site 177437010016 glycine-pyridoxal phosphate binding site [chemical binding]; other site 177437010017 folate binding site [chemical binding]; other site 177437010018 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 177437010019 acyl carrier protein; Provisional; Region: acpP; PRK00982 177437010020 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 177437010021 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 177437010022 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 177437010023 HIGH motif; other site 177437010024 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 177437010025 active site 177437010026 KMSKS motif; other site 177437010027 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 177437010028 putative ligand binding pocket/active site [active] 177437010029 putative metal binding site [ion binding]; other site 177437010030 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 177437010031 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 177437010032 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 177437010033 aspartate aminotransferase; Provisional; Region: PRK06836 177437010034 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 177437010035 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437010036 homodimer interface [polypeptide binding]; other site 177437010037 catalytic residue [active] 177437010038 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 177437010039 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 177437010040 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 177437010041 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 177437010042 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 177437010043 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 177437010044 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 177437010045 GatB domain; Region: GatB_Yqey; smart00845 177437010046 Family description; Region: VCBS; pfam13517 177437010047 Family description; Region: VCBS; pfam13517 177437010048 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 177437010049 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 177437010050 ATP binding site [chemical binding]; other site 177437010051 Mg2+ binding site [ion binding]; other site 177437010052 G-X-G motif; other site 177437010053 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 177437010054 ATP binding site [chemical binding]; other site 177437010055 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 177437010056 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 177437010057 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 177437010058 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 177437010059 Sporulation related domain; Region: SPOR; pfam05036 177437010060 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 177437010061 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 177437010062 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 177437010063 active site 177437010064 HIGH motif; other site 177437010065 KMSK motif region; other site 177437010066 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 177437010067 tRNA binding surface [nucleotide binding]; other site 177437010068 anticodon binding site; other site 177437010069 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 177437010070 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 177437010071 active site 177437010072 dimer interface [polypeptide binding]; other site 177437010073 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 177437010074 dimer interface [polypeptide binding]; other site 177437010075 active site 177437010076 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 177437010077 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 177437010078 active site 177437010079 metal binding site [ion binding]; metal-binding site 177437010080 RsbT co-antagonist protein rsbRD N-terminal domain; Region: RsbRD_N; pfam14361 177437010081 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 177437010082 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437010083 Cysteine-rich domain; Region: CCG; pfam02754 177437010084 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 177437010085 4Fe-4S binding domain; Region: Fer4; cl02805 177437010086 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 177437010087 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 177437010088 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 177437010089 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 177437010090 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 177437010091 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 177437010092 GTPase CgtA; Reviewed; Region: obgE; PRK12299 177437010093 GTP1/OBG; Region: GTP1_OBG; pfam01018 177437010094 Obg GTPase; Region: Obg; cd01898 177437010095 G1 box; other site 177437010096 GTP/Mg2+ binding site [chemical binding]; other site 177437010097 Switch I region; other site 177437010098 G2 box; other site 177437010099 G3 box; other site 177437010100 Switch II region; other site 177437010101 G4 box; other site 177437010102 G5 box; other site 177437010103 gamma-glutamyl kinase; Provisional; Region: PRK05429 177437010104 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 177437010105 nucleotide binding site [chemical binding]; other site 177437010106 homotetrameric interface [polypeptide binding]; other site 177437010107 putative phosphate binding site [ion binding]; other site 177437010108 putative allosteric binding site; other site 177437010109 PUA domain; Region: PUA; pfam01472 177437010110 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 177437010111 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 177437010112 putative catalytic cysteine [active] 177437010113 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 177437010114 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 177437010115 active site 177437010116 (T/H)XGH motif; other site 177437010117 Oligomerisation domain; Region: Oligomerisation; pfam02410 177437010118 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 177437010119 phosphoglyceromutase; Provisional; Region: PRK05434 177437010120 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 177437010121 pyruvate carboxylase subunit B; Validated; Region: PRK09282 177437010122 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 177437010123 active site 177437010124 catalytic residues [active] 177437010125 metal binding site [ion binding]; metal-binding site 177437010126 homodimer binding site [polypeptide binding]; other site 177437010127 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 177437010128 carboxyltransferase (CT) interaction site; other site 177437010129 biotinylation site [posttranslational modification]; other site 177437010130 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 177437010131 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 177437010132 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 177437010133 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 177437010134 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 177437010135 CoA-binding site [chemical binding]; other site 177437010136 ATP-binding [chemical binding]; other site 177437010137 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 177437010138 elongation factor G; Reviewed; Region: PRK00007 177437010139 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 177437010140 G1 box; other site 177437010141 putative GEF interaction site [polypeptide binding]; other site 177437010142 GTP/Mg2+ binding site [chemical binding]; other site 177437010143 Switch I region; other site 177437010144 G2 box; other site 177437010145 G3 box; other site 177437010146 Switch II region; other site 177437010147 G4 box; other site 177437010148 G5 box; other site 177437010149 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 177437010150 Elongation factor G, domain IV; Region: EFG_IV; smart00889 177437010151 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 177437010152 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 177437010153 Peptidase family M48; Region: Peptidase_M48; cl12018 177437010154 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 177437010155 TPR motif; other site 177437010156 binding surface 177437010157 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 177437010158 binding surface 177437010159 TPR motif; other site 177437010160 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 177437010161 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 177437010162 P-loop; other site 177437010163 Magnesium ion binding site [ion binding]; other site 177437010164 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 177437010165 Magnesium ion binding site [ion binding]; other site 177437010166 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 177437010167 ParB-like nuclease domain; Region: ParB; smart00470 177437010168 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 177437010169 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 177437010170 UbiA prenyltransferase family; Region: UbiA; pfam01040 177437010171 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 177437010172 Protein of unknown function (DUF342); Region: DUF342; pfam03961 177437010173 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 177437010174 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 177437010175 putative acyl-acceptor binding pocket; other site 177437010176 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177437010177 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 177437010178 Walker A motif; other site 177437010179 ATP binding site [chemical binding]; other site 177437010180 Walker B motif; other site 177437010181 arginine finger; other site 177437010182 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 177437010183 phosphate binding site [ion binding]; other site 177437010184 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 177437010185 phosphate binding site [ion binding]; other site 177437010186 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 177437010187 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 177437010188 active site 177437010189 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 177437010190 active site 177437010191 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 177437010192 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 177437010193 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 177437010194 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 177437010195 active site 177437010196 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 177437010197 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 177437010198 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 177437010199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437010200 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 177437010201 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 177437010202 putative NADP binding site [chemical binding]; other site 177437010203 active site 177437010204 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 177437010205 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 177437010206 Protein of unknown function (DUF429); Region: DUF429; pfam04250 177437010207 Isochorismatase family; Region: Isochorismatase; pfam00857 177437010208 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 177437010209 catalytic triad [active] 177437010210 metal binding site [ion binding]; metal-binding site 177437010211 conserved cis-peptide bond; other site 177437010212 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 177437010213 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437010214 active site 177437010215 phosphorylation site [posttranslational modification] 177437010216 intermolecular recognition site; other site 177437010217 dimerization interface [polypeptide binding]; other site 177437010218 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 177437010219 DNA binding site [nucleotide binding] 177437010220 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437010221 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 177437010222 dimer interface [polypeptide binding]; other site 177437010223 phosphorylation site [posttranslational modification] 177437010224 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 177437010225 ATP binding site [chemical binding]; other site 177437010226 Mg2+ binding site [ion binding]; other site 177437010227 G-X-G motif; other site 177437010228 Response regulator receiver domain; Region: Response_reg; pfam00072 177437010229 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437010230 active site 177437010231 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437010232 phosphorylation site [posttranslational modification] 177437010233 intermolecular recognition site; other site 177437010234 dimerization interface [polypeptide binding]; other site 177437010235 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 177437010236 ATP binding site [chemical binding]; other site 177437010237 Mg2+ binding site [ion binding]; other site 177437010238 G-X-G motif; other site 177437010239 Response regulator receiver domain; Region: Response_reg; pfam00072 177437010240 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437010241 active site 177437010242 phosphorylation site [posttranslational modification] 177437010243 intermolecular recognition site; other site 177437010244 dimerization interface [polypeptide binding]; other site 177437010245 PAS domain S-box; Region: sensory_box; TIGR00229 177437010246 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 177437010247 putative active site [active] 177437010248 heme pocket [chemical binding]; other site 177437010249 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437010250 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 177437010251 dimer interface [polypeptide binding]; other site 177437010252 phosphorylation site [posttranslational modification] 177437010253 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 177437010254 ATP binding site [chemical binding]; other site 177437010255 Mg2+ binding site [ion binding]; other site 177437010256 G-X-G motif; other site 177437010257 Response regulator receiver domain; Region: Response_reg; pfam00072 177437010258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437010259 active site 177437010260 phosphorylation site [posttranslational modification] 177437010261 intermolecular recognition site; other site 177437010262 dimerization interface [polypeptide binding]; other site 177437010263 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 177437010264 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 177437010265 heme-binding residues [chemical binding]; other site 177437010266 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 177437010267 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 177437010268 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 177437010269 FMN-binding domain; Region: FMN_bind; cl01081 177437010270 electron transport complex RsxE subunit; Provisional; Region: PRK12405 177437010271 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 177437010272 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437010273 4Fe-4S binding domain; Region: Fer4; pfam00037 177437010274 putative oxidoreductase; Provisional; Region: PRK12831 177437010275 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437010276 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437010277 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437010278 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 177437010279 ligand binding site [chemical binding]; other site 177437010280 flexible hinge region; other site 177437010281 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 177437010282 ApbE family; Region: ApbE; pfam02424 177437010283 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 177437010284 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 177437010285 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 177437010286 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 177437010287 chaperone protein DnaJ; Provisional; Region: PRK14299 177437010288 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 177437010289 HSP70 interaction site [polypeptide binding]; other site 177437010290 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 177437010291 substrate binding site [polypeptide binding]; other site 177437010292 dimer interface [polypeptide binding]; other site 177437010293 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177437010294 active site 177437010295 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 177437010296 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 177437010297 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 177437010298 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437010299 Response regulator receiver domain; Region: Response_reg; pfam00072 177437010300 active site 177437010301 phosphorylation site [posttranslational modification] 177437010302 intermolecular recognition site; other site 177437010303 dimerization interface [polypeptide binding]; other site 177437010304 PAS fold; Region: PAS_3; pfam08447 177437010305 PAS domain; Region: PAS_9; pfam13426 177437010306 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 177437010307 putative active site [active] 177437010308 heme pocket [chemical binding]; other site 177437010309 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437010310 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437010311 metal binding site [ion binding]; metal-binding site 177437010312 active site 177437010313 I-site; other site 177437010314 Flagellar protein YcgR; Region: YcgR_2; pfam12945 177437010315 PilZ domain; Region: PilZ; cl01260 177437010316 Bacterial sugar transferase; Region: Bac_transf; pfam02397 177437010317 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 177437010318 RNA/DNA hybrid binding site [nucleotide binding]; other site 177437010319 active site 177437010320 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437010321 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437010322 putative substrate translocation pore; other site 177437010323 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 177437010324 Protein of unknown function DUF89; Region: DUF89; cl15397 177437010325 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 177437010326 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 177437010327 DNA binding residues [nucleotide binding] 177437010328 DNA ligase; Provisional; Region: PRK09125 177437010329 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 177437010330 DNA binding site [nucleotide binding] 177437010331 active site 177437010332 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 177437010333 DNA binding site [nucleotide binding] 177437010334 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 177437010335 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 177437010336 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 177437010337 active site 177437010338 dimer interface [polypeptide binding]; other site 177437010339 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 177437010340 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 177437010341 active site 177437010342 FMN binding site [chemical binding]; other site 177437010343 substrate binding site [chemical binding]; other site 177437010344 3Fe-4S cluster binding site [ion binding]; other site 177437010345 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 177437010346 domain interface; other site 177437010347 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 177437010348 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437010349 glucokinase, proteobacterial type; Region: glk; TIGR00749 177437010350 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 177437010351 nucleotide binding site [chemical binding]; other site 177437010352 fumarate hydratase; Provisional; Region: PRK15389 177437010353 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 177437010354 Fumarase C-terminus; Region: Fumerase_C; pfam05683 177437010355 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 177437010356 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 177437010357 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 177437010358 L-aspartate oxidase; Provisional; Region: PRK06175 177437010359 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 177437010360 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 177437010361 Iron-sulfur protein interface; other site 177437010362 proximal heme binding site [chemical binding]; other site 177437010363 distal heme binding site [chemical binding]; other site 177437010364 dimer interface [polypeptide binding]; other site 177437010365 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 177437010366 CoA binding domain; Region: CoA_binding; smart00881 177437010367 CoA-ligase; Region: Ligase_CoA; pfam00549 177437010368 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 177437010369 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 177437010370 CoA-ligase; Region: Ligase_CoA; pfam00549 177437010371 membrane ATPase/protein kinase; Provisional; Region: PRK09435 177437010372 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 177437010373 Walker A; other site 177437010374 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 177437010375 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 177437010376 active site 177437010377 substrate binding site [chemical binding]; other site 177437010378 coenzyme B12 binding site [chemical binding]; other site 177437010379 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 177437010380 B12 binding site [chemical binding]; other site 177437010381 cobalt ligand [ion binding]; other site 177437010382 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 177437010383 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 177437010384 dimer interface [polypeptide binding]; other site 177437010385 substrate binding site [chemical binding]; other site 177437010386 metal binding site [ion binding]; metal-binding site 177437010387 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 177437010388 CoA-transferase family III; Region: CoA_transf_3; pfam02515 177437010389 helicase 45; Provisional; Region: PTZ00424 177437010390 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 177437010391 ATP binding site [chemical binding]; other site 177437010392 Mg++ binding site [ion binding]; other site 177437010393 motif III; other site 177437010394 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 177437010395 nucleotide binding region [chemical binding]; other site 177437010396 ATP-binding site [chemical binding]; other site 177437010397 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 177437010398 Catalytic domain of Protein Kinases; Region: PKc; cd00180 177437010399 active site 177437010400 ATP binding site [chemical binding]; other site 177437010401 substrate binding site [chemical binding]; other site 177437010402 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 177437010403 substrate binding site [chemical binding]; other site 177437010404 activation loop (A-loop); other site 177437010405 activation loop (A-loop); other site 177437010406 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 177437010407 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 177437010408 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 177437010409 active site 177437010410 metal binding site [ion binding]; metal-binding site 177437010411 Diadenosine tetraphosphatase and related serine/threonine protein phosphatases [Signal transduction mechanisms]; Region: ApaH; COG0639 177437010412 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437010413 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 177437010414 substrate binding pocket [chemical binding]; other site 177437010415 membrane-bound complex binding site; other site 177437010416 hinge residues; other site 177437010417 PAS domain S-box; Region: sensory_box; TIGR00229 177437010418 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 177437010419 putative active site [active] 177437010420 heme pocket [chemical binding]; other site 177437010421 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 177437010422 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437010423 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 177437010424 dimer interface [polypeptide binding]; other site 177437010425 phosphorylation site [posttranslational modification] 177437010426 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 177437010427 ATP binding site [chemical binding]; other site 177437010428 Mg2+ binding site [ion binding]; other site 177437010429 G-X-G motif; other site 177437010430 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437010431 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437010432 active site 177437010433 phosphorylation site [posttranslational modification] 177437010434 intermolecular recognition site; other site 177437010435 dimerization interface [polypeptide binding]; other site 177437010436 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 177437010437 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437010438 Walker A/P-loop; other site 177437010439 ATP binding site [chemical binding]; other site 177437010440 Q-loop/lid; other site 177437010441 ABC transporter signature motif; other site 177437010442 Walker B; other site 177437010443 D-loop; other site 177437010444 H-loop/switch region; other site 177437010445 TOBE domain; Region: TOBE_2; pfam08402 177437010446 sulfate transport protein; Provisional; Region: cysT; CHL00187 177437010447 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 177437010448 dimer interface [polypeptide binding]; other site 177437010449 conserved gate region; other site 177437010450 putative PBP binding loops; other site 177437010451 ABC-ATPase subunit interface; other site 177437010452 molybdate ABC transporter periplasmic substrate-binding protein; Provisional; Region: PRK04168 177437010453 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 177437010454 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 177437010455 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 177437010456 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 177437010457 putative acyl-acceptor binding pocket; other site 177437010458 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 177437010459 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 177437010460 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 177437010461 ABC-type uncharacterized transport system involved in gliding motility, auxiliary component [Cell motility and secretion]; Region: GldG; COG3225 177437010462 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 177437010463 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 177437010464 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 177437010465 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437010466 Walker A/P-loop; other site 177437010467 ATP binding site [chemical binding]; other site 177437010468 Q-loop/lid; other site 177437010469 ABC transporter signature motif; other site 177437010470 Walker B; other site 177437010471 D-loop; other site 177437010472 H-loop/switch region; other site 177437010473 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437010474 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 177437010475 dimer interface [polypeptide binding]; other site 177437010476 phosphorylation site [posttranslational modification] 177437010477 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 177437010478 ATP binding site [chemical binding]; other site 177437010479 Mg2+ binding site [ion binding]; other site 177437010480 G-X-G motif; other site 177437010481 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 177437010482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437010483 active site 177437010484 phosphorylation site [posttranslational modification] 177437010485 intermolecular recognition site; other site 177437010486 dimerization interface [polypeptide binding]; other site 177437010487 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437010488 Zn2+ binding site [ion binding]; other site 177437010489 Mg2+ binding site [ion binding]; other site 177437010490 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 177437010491 active site 177437010492 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 177437010493 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 177437010494 putative dimer interface [polypeptide binding]; other site 177437010495 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 177437010496 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 177437010497 putative dimer interface [polypeptide binding]; other site 177437010498 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 177437010499 active site 177437010500 Predicted metal-binding protein (DUF2284); Region: DUF2284; pfam10050 177437010501 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 177437010502 RNA binding surface [nucleotide binding]; other site 177437010503 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 177437010504 PAS domain; Region: PAS_9; pfam13426 177437010505 putative active site [active] 177437010506 heme pocket [chemical binding]; other site 177437010507 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177437010508 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 177437010509 Walker A motif; other site 177437010510 ATP binding site [chemical binding]; other site 177437010511 Walker B motif; other site 177437010512 arginine finger; other site 177437010513 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437010514 SirA-like protein; Region: SirA; pfam01206 177437010515 CPxP motif; other site 177437010516 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 177437010517 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437010518 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177437010519 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 177437010520 active site residue [active] 177437010521 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 177437010522 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 177437010523 FMN binding site [chemical binding]; other site 177437010524 dimer interface [polypeptide binding]; other site 177437010525 HDOD domain; Region: HDOD; pfam08668 177437010526 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 177437010527 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 177437010528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437010529 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 177437010530 NAD(P) binding site [chemical binding]; other site 177437010531 active site 177437010532 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 177437010533 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437010534 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 177437010535 acyl-activating enzyme (AAE) consensus motif; other site 177437010536 acyl-activating enzyme (AAE) consensus motif; other site 177437010537 putative AMP binding site [chemical binding]; other site 177437010538 putative active site [active] 177437010539 putative CoA binding site [chemical binding]; other site 177437010540 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 177437010541 DNA-binding site [nucleotide binding]; DNA binding site 177437010542 RNA-binding motif; other site 177437010543 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 177437010544 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 177437010545 ATP binding site [chemical binding]; other site 177437010546 Mg++ binding site [ion binding]; other site 177437010547 motif III; other site 177437010548 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 177437010549 nucleotide binding region [chemical binding]; other site 177437010550 ATP-binding site [chemical binding]; other site 177437010551 Dodecin; Region: Dodecin; pfam07311 177437010552 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 177437010553 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 177437010554 dimer interface [polypeptide binding]; other site 177437010555 decamer (pentamer of dimers) interface [polypeptide binding]; other site 177437010556 catalytic triad [active] 177437010557 peroxidatic and resolving cysteines [active] 177437010558 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 177437010559 Uncharacterized conserved protein [Function unknown]; Region: COG1624 177437010560 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 177437010561 YbbR-like protein; Region: YbbR; pfam07949 177437010562 YbbR-like protein; Region: YbbR; pfam07949 177437010563 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437010564 putative substrate translocation pore; other site 177437010565 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437010566 Predicted permeases [General function prediction only]; Region: COG0679 177437010567 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 177437010568 Domain of unknown function DUF20; Region: UPF0118; pfam01594 177437010569 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 177437010570 DNA-binding site [nucleotide binding]; DNA binding site 177437010571 RNA-binding motif; other site 177437010572 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 177437010573 EamA-like transporter family; Region: EamA; cl17759 177437010574 EamA-like transporter family; Region: EamA; cl17759 177437010575 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 177437010576 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 177437010577 G1 box; other site 177437010578 putative GEF interaction site [polypeptide binding]; other site 177437010579 GTP/Mg2+ binding site [chemical binding]; other site 177437010580 Switch I region; other site 177437010581 G2 box; other site 177437010582 G3 box; other site 177437010583 Switch II region; other site 177437010584 G4 box; other site 177437010585 G5 box; other site 177437010586 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 177437010587 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 177437010588 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 177437010589 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 177437010590 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 177437010591 putative FMN binding site [chemical binding]; other site 177437010592 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 177437010593 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 177437010594 FeS/SAM binding site; other site 177437010595 HemN C-terminal domain; Region: HemN_C; pfam06969 177437010596 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 177437010597 YceG-like family; Region: YceG; pfam02618 177437010598 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 177437010599 dimerization interface [polypeptide binding]; other site 177437010600 Smr domain; Region: Smr; pfam01713 177437010601 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 177437010602 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177437010603 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 177437010604 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 177437010605 RNB domain; Region: RNB; pfam00773 177437010606 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 177437010607 BING4CT (NUC141) domain; Region: BING4CT; cl06957 177437010608 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 177437010609 purine monophosphate binding site [chemical binding]; other site 177437010610 dimer interface [polypeptide binding]; other site 177437010611 putative catalytic residues [active] 177437010612 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 177437010613 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 177437010614 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 177437010615 Transcriptional regulators [Transcription]; Region: FadR; COG2186 177437010616 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437010617 DNA-binding site [nucleotide binding]; DNA binding site 177437010618 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 177437010619 hypothetical protein; Provisional; Region: PRK11019 177437010620 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 177437010621 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 177437010622 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 177437010623 active site 177437010624 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 177437010625 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 177437010626 DNA topoisomerase I; Validated; Region: PRK05582 177437010627 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 177437010628 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 177437010629 Uncharacterized conserved protein [Function unknown]; Region: COG1262 177437010630 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 177437010631 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 177437010632 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 177437010633 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 177437010634 active site 177437010635 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 177437010636 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 177437010637 active site 177437010638 Int/Topo IB signature motif; other site 177437010639 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 177437010640 FMN binding site [chemical binding]; other site 177437010641 substrate binding site [chemical binding]; other site 177437010642 putative catalytic residue [active] 177437010643 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 177437010644 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 177437010645 active site 177437010646 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 177437010647 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 177437010648 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 177437010649 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 177437010650 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 177437010651 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 177437010652 putative NADP binding site [chemical binding]; other site 177437010653 active site 177437010654 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 177437010655 active site 2 [active] 177437010656 dimer interface [polypeptide binding]; other site 177437010657 active site 1 [active] 177437010658 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 177437010659 active site 1 [active] 177437010660 dimer interface [polypeptide binding]; other site 177437010661 active site 2 [active] 177437010662 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437010663 Coenzyme A binding pocket [chemical binding]; other site 177437010664 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 177437010665 N-acetylglutamate synthase; Validated; Region: PRK05279 177437010666 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 177437010667 nucleotide binding site [chemical binding]; other site 177437010668 substrate binding site [chemical binding]; other site 177437010669 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437010670 Coenzyme A binding pocket [chemical binding]; other site 177437010671 DctM-like transporters; Region: DctM; pfam06808 177437010672 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 177437010673 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177437010674 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177437010675 hypothetical protein; Provisional; Region: PRK05255 177437010676 uncharacterized radical SAM protein YgiQ; Region: SAM_YgiQ; TIGR03904 177437010677 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 177437010678 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 177437010679 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 177437010680 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177437010681 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 177437010682 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177437010683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437010684 Walker A/P-loop; other site 177437010685 ATP binding site [chemical binding]; other site 177437010686 Q-loop/lid; other site 177437010687 ABC transporter signature motif; other site 177437010688 Walker B; other site 177437010689 D-loop; other site 177437010690 H-loop/switch region; other site 177437010691 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 177437010692 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177437010693 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437010694 Walker A/P-loop; other site 177437010695 ATP binding site [chemical binding]; other site 177437010696 Q-loop/lid; other site 177437010697 ABC transporter signature motif; other site 177437010698 Walker B; other site 177437010699 D-loop; other site 177437010700 H-loop/switch region; other site 177437010701 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 177437010702 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437010703 active site 177437010704 phosphorylation site [posttranslational modification] 177437010705 intermolecular recognition site; other site 177437010706 dimerization interface [polypeptide binding]; other site 177437010707 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437010708 Zn2+ binding site [ion binding]; other site 177437010709 Mg2+ binding site [ion binding]; other site 177437010710 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177437010711 GAF domain; Region: GAF; pfam01590 177437010712 PAS domain S-box; Region: sensory_box; TIGR00229 177437010713 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 177437010714 putative active site [active] 177437010715 heme pocket [chemical binding]; other site 177437010716 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437010717 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 177437010718 dimer interface [polypeptide binding]; other site 177437010719 phosphorylation site [posttranslational modification] 177437010720 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 177437010721 ATP binding site [chemical binding]; other site 177437010722 Mg2+ binding site [ion binding]; other site 177437010723 G-X-G motif; other site 177437010724 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437010725 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437010726 active site 177437010727 phosphorylation site [posttranslational modification] 177437010728 intermolecular recognition site; other site 177437010729 dimerization interface [polypeptide binding]; other site 177437010730 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 177437010731 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 177437010732 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 177437010733 putative active site [active] 177437010734 heme pocket [chemical binding]; other site 177437010735 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 177437010736 dimer interface [polypeptide binding]; other site 177437010737 phosphorylation site [posttranslational modification] 177437010738 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 177437010739 ATP binding site [chemical binding]; other site 177437010740 Mg2+ binding site [ion binding]; other site 177437010741 G-X-G motif; other site 177437010742 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 177437010743 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 177437010744 substrate binding site [chemical binding]; other site 177437010745 active site 177437010746 catalytic residues [active] 177437010747 heterodimer interface [polypeptide binding]; other site 177437010748 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 177437010749 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 177437010750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437010751 catalytic residue [active] 177437010752 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 177437010753 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437010754 DNA-binding site [nucleotide binding]; DNA binding site 177437010755 UTRA domain; Region: UTRA; cl17743 177437010756 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 177437010757 Ligand Binding Site [chemical binding]; other site 177437010758 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 177437010759 Ligand Binding Site [chemical binding]; other site 177437010760 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 177437010761 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 177437010762 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177437010763 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 177437010764 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 177437010765 Sulfate transporter family; Region: Sulfate_transp; pfam00916 177437010766 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 177437010767 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 177437010768 4Fe-4S binding domain; Region: Fer4; pfam00037 177437010769 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 177437010770 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 177437010771 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 177437010772 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 177437010773 dimer interface [polypeptide binding]; other site 177437010774 PYR/PP interface [polypeptide binding]; other site 177437010775 TPP binding site [chemical binding]; other site 177437010776 substrate binding site [chemical binding]; other site 177437010777 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 177437010778 TPP-binding site; other site 177437010779 4Fe-4S binding domain; Region: Fer4; pfam00037 177437010780 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 177437010781 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 177437010782 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 177437010783 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437010784 Walker A/P-loop; other site 177437010785 ATP binding site [chemical binding]; other site 177437010786 Q-loop/lid; other site 177437010787 ABC transporter signature motif; other site 177437010788 Walker B; other site 177437010789 D-loop; other site 177437010790 H-loop/switch region; other site 177437010791 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 177437010792 NMT1/THI5 like; Region: NMT1; pfam09084 177437010793 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437010794 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437010795 metal binding site [ion binding]; metal-binding site 177437010796 active site 177437010797 I-site; other site 177437010798 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437010799 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437010800 putative substrate translocation pore; other site 177437010801 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 177437010802 Homeodomain-like domain; Region: HTH_32; pfam13565 177437010803 Integrase core domain; Region: rve; pfam00665 177437010804 Integrase core domain; Region: rve_3; pfam13683 177437010805 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 177437010806 AAA ATPase domain; Region: AAA_16; pfam13191 177437010807 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 177437010808 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 177437010809 molybdopterin cofactor binding site; other site 177437010810 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 177437010811 molybdopterin cofactor binding site; other site 177437010812 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 177437010813 4Fe-4S binding domain; Region: Fer4; pfam00037 177437010814 Methyltransferase domain; Region: Methyltransf_18; pfam12847 177437010815 Replication protein A C terminal; Region: RPA_C; pfam08784 177437010816 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437010817 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437010818 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 177437010819 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 177437010820 Walker A/P-loop; other site 177437010821 ATP binding site [chemical binding]; other site 177437010822 Q-loop/lid; other site 177437010823 ABC transporter signature motif; other site 177437010824 Walker B; other site 177437010825 D-loop; other site 177437010826 H-loop/switch region; other site 177437010827 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 177437010828 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 177437010829 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 177437010830 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 177437010831 Uncharacterized conserved protein [Function unknown]; Region: COG3189 177437010832 hypothetical protein; Provisional; Region: PRK07475 177437010833 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 177437010834 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 177437010835 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 177437010836 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 177437010837 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437010838 TIGR04076 family protein; Region: TIGR04076 177437010839 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 177437010840 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 177437010841 Walker A/P-loop; other site 177437010842 ATP binding site [chemical binding]; other site 177437010843 Q-loop/lid; other site 177437010844 ABC transporter signature motif; other site 177437010845 Walker B; other site 177437010846 D-loop; other site 177437010847 H-loop/switch region; other site 177437010848 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 177437010849 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 177437010850 TM-ABC transporter signature motif; other site 177437010851 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 177437010852 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 177437010853 Walker A/P-loop; other site 177437010854 ATP binding site [chemical binding]; other site 177437010855 Q-loop/lid; other site 177437010856 ABC transporter signature motif; other site 177437010857 Walker B; other site 177437010858 D-loop; other site 177437010859 H-loop/switch region; other site 177437010860 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437010861 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 177437010862 TM-ABC transporter signature motif; other site 177437010863 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 177437010864 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177437010865 Transcriptional regulators [Transcription]; Region: GntR; COG1802 177437010866 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437010867 DNA-binding site [nucleotide binding]; DNA binding site 177437010868 FCD domain; Region: FCD; pfam07729 177437010869 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 177437010870 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 177437010871 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 177437010872 DNA-binding site [nucleotide binding]; DNA binding site 177437010873 RNA-binding motif; other site 177437010874 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 177437010875 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 177437010876 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437010877 putative substrate translocation pore; other site 177437010878 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 177437010879 SEC-C motif; Region: SEC-C; pfam02810 177437010880 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 177437010881 Transposase [DNA replication, recombination, and repair]; Region: COG5421 177437010882 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 177437010883 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 177437010884 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 177437010885 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437010886 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437010887 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 177437010888 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 177437010889 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 177437010890 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 177437010891 putative active site [active] 177437010892 putative FMN binding site [chemical binding]; other site 177437010893 putative substrate binding site [chemical binding]; other site 177437010894 putative catalytic residue [active] 177437010895 endonuclease IV; Provisional; Region: PRK01060 177437010896 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 177437010897 AP (apurinic/apyrimidinic) site pocket; other site 177437010898 DNA interaction; other site 177437010899 Metal-binding active site; metal-binding site 177437010900 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 177437010901 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 177437010902 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177437010903 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437010904 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437010905 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437010906 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 177437010907 AAA ATPase domain; Region: AAA_16; pfam13191 177437010908 NACHT domain; Region: NACHT; pfam05729 177437010909 Uncharacterized conserved protein [Function unknown]; Region: COG1262 177437010910 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 177437010911 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 177437010912 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 177437010913 Uncharacterized conserved protein [Function unknown]; Region: COG1262 177437010914 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 177437010915 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437010916 Isochorismatase family; Region: Isochorismatase; pfam00857 177437010917 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 177437010918 catalytic triad [active] 177437010919 conserved cis-peptide bond; other site 177437010920 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 177437010921 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 177437010922 intersubunit interface [polypeptide binding]; other site 177437010923 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 177437010924 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 177437010925 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 177437010926 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 177437010927 ABC-ATPase subunit interface; other site 177437010928 dimer interface [polypeptide binding]; other site 177437010929 putative PBP binding regions; other site 177437010930 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 177437010931 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 177437010932 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 177437010933 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 177437010934 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 177437010935 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 177437010936 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437010937 Uncharacterized conserved protein [Function unknown]; Region: COG0398 177437010938 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 177437010939 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 177437010940 Ligand binding site; other site 177437010941 Putative Catalytic site; other site 177437010942 DXD motif; other site 177437010943 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 177437010944 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177437010945 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 177437010946 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 177437010947 Walker A motif; other site 177437010948 ATP binding site [chemical binding]; other site 177437010949 Walker B motif; other site 177437010950 arginine finger; other site 177437010951 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 177437010952 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177437010953 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437010954 dimer interface [polypeptide binding]; other site 177437010955 putative CheW interface [polypeptide binding]; other site 177437010956 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 177437010957 active site 177437010958 DNA binding site [nucleotide binding] 177437010959 Int/Topo IB signature motif; other site 177437010960 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 177437010961 intermolecular recognition site; other site 177437010962 active site 177437010963 dimerization interface [polypeptide binding]; other site 177437010964 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 177437010965 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437010966 active site 177437010967 phosphorylation site [posttranslational modification] 177437010968 intermolecular recognition site; other site 177437010969 dimerization interface [polypeptide binding]; other site 177437010970 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437010971 Zn2+ binding site [ion binding]; other site 177437010972 Mg2+ binding site [ion binding]; other site 177437010973 PAS fold; Region: PAS_4; pfam08448 177437010974 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177437010975 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 177437010976 DNA binding residues [nucleotide binding] 177437010977 dimerization interface [polypeptide binding]; other site 177437010978 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 177437010979 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 177437010980 B12 binding site [chemical binding]; other site 177437010981 AAA domain; Region: AAA_22; pfam13401 177437010982 Integrase core domain; Region: rve; pfam00665 177437010983 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437010984 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 177437010985 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 177437010986 putative CheA interaction surface; other site 177437010987 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437010988 dimer interface [polypeptide binding]; other site 177437010989 putative CheW interface [polypeptide binding]; other site 177437010990 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 177437010991 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 177437010992 putative binding surface; other site 177437010993 active site 177437010994 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 177437010995 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 177437010996 ATP binding site [chemical binding]; other site 177437010997 Mg2+ binding site [ion binding]; other site 177437010998 G-X-G motif; other site 177437010999 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 177437011000 Hemerythrin; Region: Hemerythrin; cd12107 177437011001 Fe binding site [ion binding]; other site 177437011002 CheD chemotactic sensory transduction; Region: CheD; cl00810 177437011003 HDOD domain; Region: HDOD; pfam08668 177437011004 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 177437011005 Response regulator receiver domain; Region: Response_reg; pfam00072 177437011006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437011007 active site 177437011008 phosphorylation site [posttranslational modification] 177437011009 intermolecular recognition site; other site 177437011010 dimerization interface [polypeptide binding]; other site 177437011011 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 177437011012 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 177437011013 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437011014 active site 177437011015 phosphorylation site [posttranslational modification] 177437011016 intermolecular recognition site; other site 177437011017 dimerization interface [polypeptide binding]; other site 177437011018 CheB methylesterase; Region: CheB_methylest; pfam01339 177437011019 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 177437011020 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 177437011021 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 177437011022 CheD chemotactic sensory transduction; Region: CheD; cl00810 177437011023 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 177437011024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437011025 active site 177437011026 phosphorylation site [posttranslational modification] 177437011027 intermolecular recognition site; other site 177437011028 dimerization interface [polypeptide binding]; other site 177437011029 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 177437011030 NMT1-like family; Region: NMT1_2; pfam13379 177437011031 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437011032 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437011033 active site 177437011034 phosphorylation site [posttranslational modification] 177437011035 intermolecular recognition site; other site 177437011036 dimerization interface [polypeptide binding]; other site 177437011037 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 177437011038 Walker A motif; other site 177437011039 ATP binding site [chemical binding]; other site 177437011040 Walker B motif; other site 177437011041 arginine finger; other site 177437011042 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 177437011043 multiple promoter invertase; Provisional; Region: mpi; PRK13413 177437011044 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 177437011045 catalytic residues [active] 177437011046 catalytic nucleophile [active] 177437011047 Presynaptic Site I dimer interface [polypeptide binding]; other site 177437011048 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 177437011049 Synaptic Flat tetramer interface [polypeptide binding]; other site 177437011050 Synaptic Site I dimer interface [polypeptide binding]; other site 177437011051 DNA binding site [nucleotide binding] 177437011052 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 177437011053 DNA-binding interface [nucleotide binding]; DNA binding site 177437011054 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 177437011055 binding surface 177437011056 TPR motif; other site 177437011057 TPR repeat; Region: TPR_11; pfam13414 177437011058 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 177437011059 binding surface 177437011060 TPR motif; other site 177437011061 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437011062 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437011063 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 177437011064 binding surface 177437011065 TPR motif; other site 177437011066 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437011067 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 177437011068 binding surface 177437011069 TPR motif; other site 177437011070 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437011071 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437011072 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 177437011073 binding surface 177437011074 TPR motif; other site 177437011075 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437011076 putative substrate translocation pore; other site 177437011077 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437011078 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 177437011079 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 177437011080 catalytic triad [active] 177437011081 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 177437011082 CoenzymeA binding site [chemical binding]; other site 177437011083 subunit interaction site [polypeptide binding]; other site 177437011084 PHB binding site; other site 177437011085 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 177437011086 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 177437011087 nucleotide binding site [chemical binding]; other site 177437011088 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437011089 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 177437011090 TM-ABC transporter signature motif; other site 177437011091 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 177437011092 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 177437011093 ligand binding site [chemical binding]; other site 177437011094 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 177437011095 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437011096 Walker A/P-loop; other site 177437011097 ATP binding site [chemical binding]; other site 177437011098 Q-loop/lid; other site 177437011099 ABC transporter signature motif; other site 177437011100 Walker B; other site 177437011101 D-loop; other site 177437011102 H-loop/switch region; other site 177437011103 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 177437011104 GAF domain; Region: GAF_3; pfam13492 177437011105 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 177437011106 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 177437011107 Walker A motif; other site 177437011108 ATP binding site [chemical binding]; other site 177437011109 Walker B motif; other site 177437011110 arginine finger; other site 177437011111 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 177437011112 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177437011113 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 177437011114 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 177437011115 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 177437011116 FMN binding site [chemical binding]; other site 177437011117 substrate binding site [chemical binding]; other site 177437011118 putative catalytic residue [active] 177437011119 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 177437011120 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 177437011121 motif II; other site 177437011122 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177437011123 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 177437011124 Transposase; Region: DEDD_Tnp_IS110; pfam01548 177437011125 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 177437011126 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 177437011127 putative catalytic residues [active] 177437011128 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 177437011129 substrate binding site [chemical binding]; other site 177437011130 THF binding site; other site 177437011131 zinc-binding site [ion binding]; other site 177437011132 flavodoxin; Provisional; Region: PRK06242 177437011133 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 177437011134 HTH-like domain; Region: HTH_21; pfam13276 177437011135 Integrase core domain; Region: rve; pfam00665 177437011136 DDE domain; Region: DDE_Tnp_IS240; pfam13610 177437011137 Integrase core domain; Region: rve_3; pfam13683 177437011138 Transposase; Region: HTH_Tnp_1; cl17663 177437011139 PEP-CTERM motif; Region: VPEP; pfam07589 177437011140 selenophosphate synthetase; Provisional; Region: PRK00943 177437011141 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 177437011142 dimerization interface [polypeptide binding]; other site 177437011143 putative ATP binding site [chemical binding]; other site 177437011144 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 177437011145 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 177437011146 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177437011147 catalytic residue [active] 177437011148 Esterase/lipase [General function prediction only]; Region: COG1647 177437011149 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 177437011150 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 177437011151 FeS/SAM binding site; other site 177437011152 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; cl15377 177437011153 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 177437011154 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437011155 Walker A/P-loop; other site 177437011156 ATP binding site [chemical binding]; other site 177437011157 Q-loop/lid; other site 177437011158 ABC transporter signature motif; other site 177437011159 Walker B; other site 177437011160 D-loop; other site 177437011161 H-loop/switch region; other site 177437011162 TOBE domain; Region: TOBE_2; pfam08402 177437011163 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 177437011164 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 177437011165 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 177437011166 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 177437011167 dimer interface [polypeptide binding]; other site 177437011168 conserved gate region; other site 177437011169 putative PBP binding loops; other site 177437011170 ABC-ATPase subunit interface; other site 177437011171 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 177437011172 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 177437011173 dimer interface [polypeptide binding]; other site 177437011174 conserved gate region; other site 177437011175 putative PBP binding loops; other site 177437011176 ABC-ATPase subunit interface; other site 177437011177 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 177437011178 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 177437011179 active site 177437011180 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 177437011181 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 177437011182 Proline racemase; Region: Pro_racemase; pfam05544 177437011183 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177437011184 DctM-like transporters; Region: DctM; pfam06808 177437011185 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177437011186 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177437011187 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437011188 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177437011189 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 177437011190 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 177437011191 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 177437011192 AlkA N-terminal domain; Region: AlkA_N; pfam06029 177437011193 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 177437011194 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 177437011195 minor groove reading motif; other site 177437011196 helix-hairpin-helix signature motif; other site 177437011197 substrate binding pocket [chemical binding]; other site 177437011198 active site 177437011199 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 177437011200 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 177437011201 Ca2+ binding site [ion binding]; other site 177437011202 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 177437011203 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 177437011204 active site 177437011205 HIGH motif; other site 177437011206 dimer interface [polypeptide binding]; other site 177437011207 KMSKS motif; other site 177437011208 phosphodiesterase; Provisional; Region: PRK12704 177437011209 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437011210 Zn2+ binding site [ion binding]; other site 177437011211 Mg2+ binding site [ion binding]; other site 177437011212 Cell division protein ZapA; Region: ZapA; cl01146 177437011213 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 177437011214 Substrate binding site; other site 177437011215 Mg++ binding site; other site 177437011216 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 177437011217 gamma subunit interface [polypeptide binding]; other site 177437011218 epsilon subunit interface [polypeptide binding]; other site 177437011219 LBP interface [polypeptide binding]; other site 177437011220 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 177437011221 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 177437011222 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 177437011223 alpha subunit interaction interface [polypeptide binding]; other site 177437011224 Walker A motif; other site 177437011225 ATP binding site [chemical binding]; other site 177437011226 Walker B motif; other site 177437011227 inhibitor binding site; inhibition site 177437011228 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 177437011229 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 177437011230 core domain interface [polypeptide binding]; other site 177437011231 delta subunit interface [polypeptide binding]; other site 177437011232 epsilon subunit interface [polypeptide binding]; other site 177437011233 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 177437011234 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 177437011235 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 177437011236 beta subunit interaction interface [polypeptide binding]; other site 177437011237 Walker A motif; other site 177437011238 ATP binding site [chemical binding]; other site 177437011239 Walker B motif; other site 177437011240 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 177437011241 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 177437011242 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 177437011243 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 177437011244 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 177437011245 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 177437011246 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 177437011247 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 177437011248 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 177437011249 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 177437011250 rod shape-determining protein MreC; Provisional; Region: PRK13922 177437011251 rod shape-determining protein MreC; Region: MreC; pfam04085 177437011252 rod shape-determining protein MreB; Provisional; Region: PRK13927 177437011253 MreB and similar proteins; Region: MreB_like; cd10225 177437011254 nucleotide binding site [chemical binding]; other site 177437011255 Mg binding site [ion binding]; other site 177437011256 putative protofilament interaction site [polypeptide binding]; other site 177437011257 RodZ interaction site [polypeptide binding]; other site 177437011258 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 177437011259 Beta-lactamase; Region: Beta-lactamase; cl17358 177437011260 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 177437011261 dimer interface [polypeptide binding]; other site 177437011262 catalytic triad [active] 177437011263 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 177437011264 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 177437011265 PAS domain; Region: PAS; smart00091 177437011266 PAS domain; Region: PAS_9; pfam13426 177437011267 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 177437011268 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437011269 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 177437011270 ligand binding site [chemical binding]; other site 177437011271 flexible hinge region; other site 177437011272 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 177437011273 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177437011274 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 177437011275 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177437011276 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 177437011277 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177437011278 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 177437011279 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 177437011280 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 177437011281 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 177437011282 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 177437011283 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 177437011284 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 177437011285 Peptidase family U32; Region: Peptidase_U32; pfam01136 177437011286 helicase 45; Provisional; Region: PTZ00424 177437011287 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 177437011288 ATP binding site [chemical binding]; other site 177437011289 Mg++ binding site [ion binding]; other site 177437011290 motif III; other site 177437011291 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 177437011292 nucleotide binding region [chemical binding]; other site 177437011293 ATP-binding site [chemical binding]; other site 177437011294 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 177437011295 putative RNA binding site [nucleotide binding]; other site 177437011296 DEAD-like helicases superfamily; Region: DEXDc; smart00487 177437011297 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 177437011298 ATP binding site [chemical binding]; other site 177437011299 putative Mg++ binding site [ion binding]; other site 177437011300 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 177437011301 nucleotide binding region [chemical binding]; other site 177437011302 ATP-binding site [chemical binding]; other site 177437011303 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 177437011304 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 177437011305 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437011306 Walker A/P-loop; other site 177437011307 ATP binding site [chemical binding]; other site 177437011308 Q-loop/lid; other site 177437011309 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177437011310 ABC transporter; Region: ABC_tran_2; pfam12848 177437011311 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177437011312 EamA-like transporter family; Region: EamA; pfam00892 177437011313 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 177437011314 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 177437011315 G1 box; other site 177437011316 putative GEF interaction site [polypeptide binding]; other site 177437011317 GTP/Mg2+ binding site [chemical binding]; other site 177437011318 Switch I region; other site 177437011319 G2 box; other site 177437011320 G3 box; other site 177437011321 Switch II region; other site 177437011322 G4 box; other site 177437011323 G5 box; other site 177437011324 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 177437011325 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 177437011326 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177437011327 catalytic residue [active] 177437011328 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 177437011329 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 177437011330 ligand binding site [chemical binding]; other site 177437011331 NAD binding site [chemical binding]; other site 177437011332 dimerization interface [polypeptide binding]; other site 177437011333 catalytic site [active] 177437011334 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 177437011335 putative L-serine binding site [chemical binding]; other site 177437011336 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 177437011337 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 177437011338 FAD binding domain; Region: FAD_binding_4; pfam01565 177437011339 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 177437011340 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437011341 Cysteine-rich domain; Region: CCG; pfam02754 177437011342 Cysteine-rich domain; Region: CCG; pfam02754 177437011343 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 177437011344 RNA methyltransferase, RsmE family; Region: TIGR00046 177437011345 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 177437011346 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 177437011347 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 177437011348 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 177437011349 G1 box; other site 177437011350 GTP/Mg2+ binding site [chemical binding]; other site 177437011351 G2 box; other site 177437011352 Switch I region; other site 177437011353 G3 box; other site 177437011354 Switch II region; other site 177437011355 G4 box; other site 177437011356 G5 box; other site 177437011357 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177437011358 EamA-like transporter family; Region: EamA; pfam00892 177437011359 EamA-like transporter family; Region: EamA; pfam00892 177437011360 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 177437011361 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 177437011362 Ligand Binding Site [chemical binding]; other site 177437011363 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 177437011364 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 177437011365 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 177437011366 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 177437011367 Ligand binding site [chemical binding]; other site 177437011368 Electron transfer flavoprotein domain; Region: ETF; pfam01012 177437011369 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437011370 Cysteine-rich domain; Region: CCG; pfam02754 177437011371 Cysteine-rich domain; Region: CCG; pfam02754 177437011372 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437011373 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437011374 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 177437011375 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 177437011376 active site 177437011377 zinc binding site [ion binding]; other site 177437011378 Na+ binding site [ion binding]; other site 177437011379 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 177437011380 Interferon alpha, beta. Includes also interferon omega and tau. Different from interferon gamma family. Type I interferons(alpha, beta) belong to the larger helical cytokine superfamily, which includes growth hormones, interleukins, several...; Region: IFab; cl00092 177437011381 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 177437011382 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 177437011383 substrate binding site [chemical binding]; other site 177437011384 glutamase interaction surface [polypeptide binding]; other site 177437011385 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 177437011386 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 177437011387 putative active site [active] 177437011388 oxyanion strand; other site 177437011389 catalytic triad [active] 177437011390 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 177437011391 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 177437011392 homodimer interface [polypeptide binding]; other site 177437011393 metal binding site [ion binding]; metal-binding site 177437011394 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 177437011395 homodimer interface [polypeptide binding]; other site 177437011396 active site 177437011397 putative chemical substrate binding site [chemical binding]; other site 177437011398 metal binding site [ion binding]; metal-binding site 177437011399 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 177437011400 Colicin V production protein; Region: Colicin_V; pfam02674 177437011401 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 177437011402 PhoH-like protein; Region: PhoH; pfam02562 177437011403 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 177437011404 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 177437011405 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437011406 Zn2+ binding site [ion binding]; other site 177437011407 Mg2+ binding site [ion binding]; other site 177437011408 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 177437011409 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 177437011410 active site 177437011411 hydrophilic channel; other site 177437011412 dimerization interface [polypeptide binding]; other site 177437011413 catalytic residues [active] 177437011414 active site lid [active] 177437011415 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 177437011416 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 177437011417 active site 177437011418 DsrE/DsrF-like family; Region: DrsE; pfam02635 177437011419 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177437011420 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 177437011421 active site residue [active] 177437011422 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 177437011423 active site residue [active] 177437011424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 177437011425 SEC-C motif; Region: SEC-C; pfam02810 177437011426 putative carbohydrate kinase; Provisional; Region: PRK10565 177437011427 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 177437011428 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 177437011429 putative substrate binding site [chemical binding]; other site 177437011430 putative ATP binding site [chemical binding]; other site 177437011431 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 177437011432 aspartate kinase; Reviewed; Region: PRK06635 177437011433 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 177437011434 putative nucleotide binding site [chemical binding]; other site 177437011435 putative catalytic residues [active] 177437011436 putative Mg ion binding site [ion binding]; other site 177437011437 putative aspartate binding site [chemical binding]; other site 177437011438 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 177437011439 putative allosteric regulatory site; other site 177437011440 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 177437011441 putative allosteric regulatory residue; other site 177437011442 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 177437011443 active site 177437011444 dimer interface [polypeptide binding]; other site 177437011445 CheD chemotactic sensory transduction; Region: CheD; cl00810 177437011446 HDOD domain; Region: HDOD; pfam08668 177437011447 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437011448 Zn2+ binding site [ion binding]; other site 177437011449 Mg2+ binding site [ion binding]; other site 177437011450 selenocysteine synthase; Provisional; Region: PRK04311 177437011451 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 177437011452 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 177437011453 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177437011454 catalytic residue [active] 177437011455 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 177437011456 TPR motif; other site 177437011457 binding surface 177437011458 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437011459 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 177437011460 binding surface 177437011461 TPR motif; other site 177437011462 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437011463 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 177437011464 TPR repeat; Region: TPR_11; pfam13414 177437011465 binding surface 177437011466 TPR motif; other site 177437011467 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 177437011468 dimer interface [polypeptide binding]; other site 177437011469 active site 177437011470 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 177437011471 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 177437011472 domain interfaces; other site 177437011473 active site 177437011474 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 177437011475 active site 177437011476 SAM binding site [chemical binding]; other site 177437011477 homodimer interface [polypeptide binding]; other site 177437011478 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 177437011479 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 177437011480 active site 177437011481 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 177437011482 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 177437011483 FeS/SAM binding site; other site 177437011484 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 177437011485 GAF domain; Region: GAF; cl17456 177437011486 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437011487 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437011488 metal binding site [ion binding]; metal-binding site 177437011489 active site 177437011490 I-site; other site 177437011491 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 177437011492 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 177437011493 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 177437011494 alphaNTD - beta interaction site [polypeptide binding]; other site 177437011495 alphaNTD homodimer interface [polypeptide binding]; other site 177437011496 alphaNTD - beta' interaction site [polypeptide binding]; other site 177437011497 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 177437011498 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 177437011499 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 177437011500 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 177437011501 RNA binding surface [nucleotide binding]; other site 177437011502 30S ribosomal protein S11; Validated; Region: PRK05309 177437011503 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 177437011504 30S ribosomal protein S13; Region: bact_S13; TIGR03631 177437011505 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 177437011506 rRNA binding site [nucleotide binding]; other site 177437011507 predicted 30S ribosome binding site; other site 177437011508 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 177437011509 SecY translocase; Region: SecY; pfam00344 177437011510 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 177437011511 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 177437011512 23S rRNA binding site [nucleotide binding]; other site 177437011513 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 177437011514 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 177437011515 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 177437011516 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 177437011517 5S rRNA interface [nucleotide binding]; other site 177437011518 L27 interface [polypeptide binding]; other site 177437011519 23S rRNA interface [nucleotide binding]; other site 177437011520 L5 interface [polypeptide binding]; other site 177437011521 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 177437011522 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 177437011523 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 177437011524 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 177437011525 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 177437011526 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 177437011527 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 177437011528 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 177437011529 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 177437011530 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 177437011531 RNA binding site [nucleotide binding]; other site 177437011532 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 177437011533 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 177437011534 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 177437011535 23S rRNA interface [nucleotide binding]; other site 177437011536 putative translocon interaction site; other site 177437011537 signal recognition particle (SRP54) interaction site; other site 177437011538 L23 interface [polypeptide binding]; other site 177437011539 trigger factor interaction site; other site 177437011540 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 177437011541 5S rRNA interface [nucleotide binding]; other site 177437011542 23S rRNA interface [nucleotide binding]; other site 177437011543 putative antibiotic binding site [chemical binding]; other site 177437011544 L25 interface [polypeptide binding]; other site 177437011545 L27 interface [polypeptide binding]; other site 177437011546 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 177437011547 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 177437011548 G-X-X-G motif; other site 177437011549 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 177437011550 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 177437011551 putative translocon binding site; other site 177437011552 protein-rRNA interface [nucleotide binding]; other site 177437011553 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 177437011554 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 177437011555 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 177437011556 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 177437011557 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 177437011558 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 177437011559 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 177437011560 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 177437011561 elongation factor Tu; Reviewed; Region: PRK00049 177437011562 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 177437011563 G3 box; other site 177437011564 Switch II region; other site 177437011565 GTP/Mg2+ binding site [chemical binding]; other site 177437011566 G4 box; other site 177437011567 G5 box; other site 177437011568 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 177437011569 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 177437011570 Antibiotic Binding Site [chemical binding]; other site 177437011571 30S ribosomal protein S7; Validated; Region: PRK05302 177437011572 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 177437011573 S17 interaction site [polypeptide binding]; other site 177437011574 S8 interaction site; other site 177437011575 16S rRNA interaction site [nucleotide binding]; other site 177437011576 streptomycin interaction site [chemical binding]; other site 177437011577 23S rRNA interaction site [nucleotide binding]; other site 177437011578 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 177437011579 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 177437011580 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 177437011581 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 177437011582 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 177437011583 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 177437011584 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 177437011585 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 177437011586 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 177437011587 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 177437011588 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 177437011589 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 177437011590 DNA binding site [nucleotide binding] 177437011591 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 177437011592 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 177437011593 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 177437011594 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 177437011595 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 177437011596 RPB12 interaction site [polypeptide binding]; other site 177437011597 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 177437011598 RPB11 interaction site [polypeptide binding]; other site 177437011599 RPB12 interaction site [polypeptide binding]; other site 177437011600 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 177437011601 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 177437011602 RPB1 interaction site [polypeptide binding]; other site 177437011603 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 177437011604 L11 interface [polypeptide binding]; other site 177437011605 putative EF-Tu interaction site [polypeptide binding]; other site 177437011606 putative EF-G interaction site [polypeptide binding]; other site 177437011607 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 177437011608 23S rRNA interface [nucleotide binding]; other site 177437011609 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 177437011610 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 177437011611 mRNA/rRNA interface [nucleotide binding]; other site 177437011612 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 177437011613 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 177437011614 23S rRNA interface [nucleotide binding]; other site 177437011615 L7/L12 interface [polypeptide binding]; other site 177437011616 putative thiostrepton binding site; other site 177437011617 L25 interface [polypeptide binding]; other site 177437011618 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 177437011619 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 177437011620 putative homodimer interface [polypeptide binding]; other site 177437011621 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 177437011622 heterodimer interface [polypeptide binding]; other site 177437011623 homodimer interface [polypeptide binding]; other site 177437011624 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 177437011625 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 177437011626 elongation factor Tu; Reviewed; Region: PRK00049 177437011627 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 177437011628 G1 box; other site 177437011629 GEF interaction site [polypeptide binding]; other site 177437011630 GTP/Mg2+ binding site [chemical binding]; other site 177437011631 Switch I region; other site 177437011632 G2 box; other site 177437011633 G3 box; other site 177437011634 Switch II region; other site 177437011635 G4 box; other site 177437011636 G5 box; other site 177437011637 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 177437011638 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 177437011639 Antibiotic Binding Site [chemical binding]; other site 177437011640 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 177437011641 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 177437011642 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177437011643 catalytic residue [active] 177437011644 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177437011645 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 177437011646 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177437011647 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 177437011648 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177437011649 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 177437011650 Peptidase family U32; Region: Peptidase_U32; pfam01136 177437011651 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 177437011652 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 177437011653 putative binding surface; other site 177437011654 active site 177437011655 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 177437011656 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 177437011657 ATP binding site [chemical binding]; other site 177437011658 Mg2+ binding site [ion binding]; other site 177437011659 G-X-G motif; other site 177437011660 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 177437011661 CheW-like domain; Region: CheW; pfam01584 177437011662 Response regulator receiver domain; Region: Response_reg; pfam00072 177437011663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437011664 active site 177437011665 phosphorylation site [posttranslational modification] 177437011666 intermolecular recognition site; other site 177437011667 dimerization interface [polypeptide binding]; other site 177437011668 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 177437011669 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 177437011670 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437011671 active site 177437011672 phosphorylation site [posttranslational modification] 177437011673 intermolecular recognition site; other site 177437011674 dimerization interface [polypeptide binding]; other site 177437011675 CheB methylesterase; Region: CheB_methylest; pfam01339 177437011676 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 177437011677 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 177437011678 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 177437011679 HEAT repeats; Region: HEAT_2; pfam13646 177437011680 HEAT repeats; Region: HEAT_2; pfam13646 177437011681 Response regulator receiver domain; Region: Response_reg; pfam00072 177437011682 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437011683 active site 177437011684 phosphorylation site [posttranslational modification] 177437011685 intermolecular recognition site; other site 177437011686 dimerization interface [polypeptide binding]; other site 177437011687 Phosphoglycerate kinase; Region: PGK; pfam00162 177437011688 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 177437011689 substrate binding site [chemical binding]; other site 177437011690 hinge regions; other site 177437011691 ADP binding site [chemical binding]; other site 177437011692 catalytic site [active] 177437011693 hypothetical protein; Reviewed; Region: PRK00024 177437011694 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 177437011695 MPN+ (JAMM) motif; other site 177437011696 Zinc-binding site [ion binding]; other site 177437011697 DNA gyrase subunit A; Validated; Region: PRK05560 177437011698 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 177437011699 CAP-like domain; other site 177437011700 active site 177437011701 primary dimer interface [polypeptide binding]; other site 177437011702 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177437011703 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177437011704 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177437011705 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177437011706 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177437011707 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177437011708 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 177437011709 putative acyltransferase; Provisional; Region: PRK05790 177437011710 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 177437011711 dimer interface [polypeptide binding]; other site 177437011712 active site 177437011713 NRDE protein; Region: NRDE; pfam05742 177437011714 recombination factor protein RarA; Reviewed; Region: PRK13342 177437011715 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 177437011716 Walker A motif; other site 177437011717 ATP binding site [chemical binding]; other site 177437011718 Walker B motif; other site 177437011719 arginine finger; other site 177437011720 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 177437011721 GTP-binding protein Der; Reviewed; Region: PRK00093 177437011722 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 177437011723 G1 box; other site 177437011724 GTP/Mg2+ binding site [chemical binding]; other site 177437011725 Switch I region; other site 177437011726 G2 box; other site 177437011727 Switch II region; other site 177437011728 G3 box; other site 177437011729 G4 box; other site 177437011730 G5 box; other site 177437011731 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 177437011732 G1 box; other site 177437011733 GTP/Mg2+ binding site [chemical binding]; other site 177437011734 Switch I region; other site 177437011735 G2 box; other site 177437011736 G3 box; other site 177437011737 Switch II region; other site 177437011738 G4 box; other site 177437011739 G5 box; other site 177437011740 Cation transport protein; Region: TrkH; cl17365 177437011741 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 177437011742 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 177437011743 TrkA-N domain; Region: TrkA_N; pfam02254 177437011744 TrkA-C domain; Region: TrkA_C; pfam02080 177437011745 TrkA-N domain; Region: TrkA_N; pfam02254 177437011746 TrkA-C domain; Region: TrkA_C; pfam02080 177437011747 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 177437011748 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 177437011749 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 177437011750 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 177437011751 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437011752 ligand binding site [chemical binding]; other site 177437011753 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 177437011754 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 177437011755 NAD(P) binding site [chemical binding]; other site 177437011756 homodimer interface [polypeptide binding]; other site 177437011757 substrate binding site [chemical binding]; other site 177437011758 active site 177437011759 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 177437011760 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 177437011761 inhibitor-cofactor binding pocket; inhibition site 177437011762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437011763 catalytic residue [active] 177437011764 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 177437011765 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 177437011766 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 177437011767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 177437011768 pseudaminic acid synthase; Region: PseI; TIGR03586 177437011769 NeuB family; Region: NeuB; pfam03102 177437011770 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 177437011771 NeuB binding interface [polypeptide binding]; other site 177437011772 putative substrate binding site [chemical binding]; other site 177437011773 TIGR03032 family protein; Region: TIGR03032 177437011774 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177437011775 Methyltransferase domain; Region: Methyltransf_12; pfam08242 177437011776 S-adenosylmethionine binding site [chemical binding]; other site 177437011777 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 177437011778 Ligand Binding Site [chemical binding]; other site 177437011779 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 177437011780 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 177437011781 putative active site [active] 177437011782 oxyanion strand; other site 177437011783 catalytic triad [active] 177437011784 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 177437011785 AAA ATPase domain; Region: AAA_16; pfam13191 177437011786 Homeodomain-like domain; Region: HTH_32; pfam13565 177437011787 Integrase core domain; Region: rve; pfam00665 177437011788 Integrase core domain; Region: rve_3; pfam13683 177437011789 imidazole glycerol phosphate synthase subunit HisF; Provisional; Region: PRK01033 177437011790 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 177437011791 substrate binding site [chemical binding]; other site 177437011792 glutamase interaction surface [polypeptide binding]; other site 177437011793 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 177437011794 ligand binding site; other site 177437011795 tetramer interface; other site 177437011796 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 177437011797 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 177437011798 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 177437011799 TPR motif; other site 177437011800 binding surface 177437011801 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 177437011802 binding surface 177437011803 TPR motif; other site 177437011804 flagellin B; Provisional; Region: PRK13588 177437011805 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 177437011806 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 177437011807 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 177437011808 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 177437011809 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 177437011810 Flagellar protein FliS; Region: FliS; cl00654 177437011811 FlaG protein; Region: FlaG; pfam03646 177437011812 FliW protein; Region: FliW; cl00740 177437011813 Global regulator protein family; Region: CsrA; pfam02599 177437011814 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 177437011815 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 177437011816 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 177437011817 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 177437011818 FlgN protein; Region: FlgN; pfam05130 177437011819 Rod binding protein; Region: Rod-binding; pfam10135 177437011820 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 177437011821 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 177437011822 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12696 177437011823 Flagellar L-ring protein; Region: FlgH; pfam02107 177437011824 SAF-like; Region: SAF_2; pfam13144 177437011825 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 177437011826 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 177437011827 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 177437011828 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 177437011829 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 177437011830 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 177437011831 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 177437011832 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 177437011833 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 177437011834 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 177437011835 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177437011836 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 177437011837 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 177437011838 DNA binding residues [nucleotide binding] 177437011839 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 177437011840 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 177437011841 P-loop; other site 177437011842 Flagellar GTP-binding protein [Cell motility and secretion]; Region: FlhF; COG1419 177437011843 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 177437011844 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 177437011845 FHIPEP family; Region: FHIPEP; pfam00771 177437011846 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 177437011847 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 177437011848 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 177437011849 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 177437011850 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 177437011851 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 177437011852 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 177437011853 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 177437011854 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 177437011855 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 177437011856 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 177437011857 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 177437011858 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 177437011859 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 177437011860 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 177437011861 Uncharacterized conserved protein [Function unknown]; Region: COG3334 177437011862 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 177437011863 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 177437011864 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 177437011865 Walker A motif/ATP binding site; other site 177437011866 Walker B motif; other site 177437011867 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 177437011868 Flagellar assembly protein FliH; Region: FliH; pfam02108 177437011869 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 177437011870 FliG C-terminal domain; Region: FliG_C; pfam01706 177437011871 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 177437011872 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 177437011873 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 177437011874 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 177437011875 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 177437011876 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 177437011877 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 177437011878 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 177437011879 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 177437011880 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437011881 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437011882 active site 177437011883 phosphorylation site [posttranslational modification] 177437011884 intermolecular recognition site; other site 177437011885 dimerization interface [polypeptide binding]; other site 177437011886 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 177437011887 Walker A motif; other site 177437011888 ATP binding site [chemical binding]; other site 177437011889 Walker B motif; other site 177437011890 arginine finger; other site 177437011891 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437011892 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 177437011893 TPR motif; other site 177437011894 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437011895 binding surface 177437011896 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 177437011897 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 177437011898 binding surface 177437011899 TPR motif; other site 177437011900 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 177437011901 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 177437011902 Walker A motif; other site 177437011903 ATP binding site [chemical binding]; other site 177437011904 Walker B motif; other site 177437011905 arginine finger; other site 177437011906 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437011907 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 177437011908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437011909 active site 177437011910 phosphorylation site [posttranslational modification] 177437011911 intermolecular recognition site; other site 177437011912 dimerization interface [polypeptide binding]; other site 177437011913 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 177437011914 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 177437011915 PilZ domain; Region: PilZ; pfam07238 177437011916 Response regulator receiver domain; Region: Response_reg; pfam00072 177437011917 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437011918 active site 177437011919 phosphorylation site [posttranslational modification] 177437011920 intermolecular recognition site; other site 177437011921 dimerization interface [polypeptide binding]; other site 177437011922 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177437011923 GAF domain; Region: GAF_3; pfam13492 177437011924 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437011925 Zn2+ binding site [ion binding]; other site 177437011926 Mg2+ binding site [ion binding]; other site 177437011927 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 177437011928 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 177437011929 putative DNA binding site [nucleotide binding]; other site 177437011930 putative Zn2+ binding site [ion binding]; other site 177437011931 AsnC family; Region: AsnC_trans_reg; pfam01037 177437011932 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 177437011933 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 177437011934 active site 177437011935 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177437011936 substrate binding site [chemical binding]; other site 177437011937 catalytic residues [active] 177437011938 dimer interface [polypeptide binding]; other site 177437011939 NAD synthetase; Provisional; Region: PRK13981 177437011940 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 177437011941 multimer interface [polypeptide binding]; other site 177437011942 active site 177437011943 catalytic triad [active] 177437011944 protein interface 1 [polypeptide binding]; other site 177437011945 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 177437011946 homodimer interface [polypeptide binding]; other site 177437011947 NAD binding pocket [chemical binding]; other site 177437011948 ATP binding pocket [chemical binding]; other site 177437011949 Mg binding site [ion binding]; other site 177437011950 active-site loop [active] 177437011951 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 177437011952 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 177437011953 substrate binding site [chemical binding]; other site 177437011954 oxyanion hole (OAH) forming residues; other site 177437011955 trimer interface [polypeptide binding]; other site 177437011956 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 177437011957 muropeptide transporter; Validated; Region: ampG; cl17669 177437011958 muropeptide transporter; Reviewed; Region: ampG; PRK11902 177437011959 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 177437011960 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 177437011961 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 177437011962 FeS/SAM binding site; other site 177437011963 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 177437011964 TPR motif; other site 177437011965 binding surface 177437011966 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 177437011967 FMN binding site [chemical binding]; other site 177437011968 dimer interface [polypeptide binding]; other site 177437011969 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 177437011970 active site 177437011971 dimerization interface [polypeptide binding]; other site 177437011972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 177437011973 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 177437011974 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177437011975 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437011976 ligand binding site [chemical binding]; other site 177437011977 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 177437011978 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177437011979 catalytic residue [active] 177437011980 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 177437011981 CoenzymeA binding site [chemical binding]; other site 177437011982 subunit interaction site [polypeptide binding]; other site 177437011983 PHB binding site; other site 177437011984 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 177437011985 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 177437011986 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 177437011987 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 177437011988 TPP-binding site [chemical binding]; other site 177437011989 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 177437011990 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 177437011991 dimer interface [polypeptide binding]; other site 177437011992 PYR/PP interface [polypeptide binding]; other site 177437011993 TPP binding site [chemical binding]; other site 177437011994 substrate binding site [chemical binding]; other site 177437011995 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177437011996 Ferredoxin [Energy production and conversion]; Region: COG1146 177437011997 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437011998 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 177437011999 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 177437012000 active site 177437012001 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437012002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012003 active site 177437012004 phosphorylation site [posttranslational modification] 177437012005 intermolecular recognition site; other site 177437012006 dimerization interface [polypeptide binding]; other site 177437012007 Protein of unknown function (DUF342); Region: DUF342; pfam03961 177437012008 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012009 active site 177437012010 phosphorylation site [posttranslational modification] 177437012011 intermolecular recognition site; other site 177437012012 dimerization interface [polypeptide binding]; other site 177437012013 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 177437012014 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 177437012015 ATP binding site [chemical binding]; other site 177437012016 putative Mg++ binding site [ion binding]; other site 177437012017 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 177437012018 nucleotide binding region [chemical binding]; other site 177437012019 ATP-binding site [chemical binding]; other site 177437012020 Helicase associated domain (HA2); Region: HA2; pfam04408 177437012021 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 177437012022 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 177437012023 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 177437012024 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437012025 Cysteine-rich domain; Region: CCG; pfam02754 177437012026 Predicted integral membrane protein [Function unknown]; Region: COG5652 177437012027 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 177437012028 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 177437012029 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 177437012030 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 177437012031 active site 177437012032 dimer interface [polypeptide binding]; other site 177437012033 motif 1; other site 177437012034 motif 2; other site 177437012035 motif 3; other site 177437012036 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 177437012037 anticodon binding site; other site 177437012038 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 177437012039 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 177437012040 catalytic site [active] 177437012041 putative active site [active] 177437012042 putative substrate binding site [chemical binding]; other site 177437012043 HRDC domain; Region: HRDC; pfam00570 177437012044 HRDC domain; Region: HRDC; pfam00570 177437012045 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 177437012046 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 177437012047 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 177437012048 Rhomboid family; Region: Rhomboid; cl11446 177437012049 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 177437012050 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 177437012051 SprT-like family; Region: SprT-like; pfam10263 177437012052 putative MFS family transporter protein; Provisional; Region: PRK03633 177437012053 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437012054 putative substrate translocation pore; other site 177437012055 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177437012056 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437012057 dimer interface [polypeptide binding]; other site 177437012058 putative CheW interface [polypeptide binding]; other site 177437012059 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 177437012060 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 177437012061 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 177437012062 zinc binding site [ion binding]; other site 177437012063 putative ligand binding site [chemical binding]; other site 177437012064 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437012065 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 177437012066 TM-ABC transporter signature motif; other site 177437012067 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 177437012068 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437012069 Walker A/P-loop; other site 177437012070 ATP binding site [chemical binding]; other site 177437012071 Q-loop/lid; other site 177437012072 ABC transporter signature motif; other site 177437012073 Walker B; other site 177437012074 D-loop; other site 177437012075 H-loop/switch region; other site 177437012076 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 177437012077 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 177437012078 G1 box; other site 177437012079 putative GEF interaction site [polypeptide binding]; other site 177437012080 GTP/Mg2+ binding site [chemical binding]; other site 177437012081 Switch I region; other site 177437012082 G2 box; other site 177437012083 G3 box; other site 177437012084 Switch II region; other site 177437012085 G4 box; other site 177437012086 G5 box; other site 177437012087 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 177437012088 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 177437012089 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 177437012090 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 177437012091 Ligand Binding Site [chemical binding]; other site 177437012092 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 177437012093 Ligand Binding Site [chemical binding]; other site 177437012094 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 177437012095 CoA binding domain; Region: CoA_binding_2; pfam13380 177437012096 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 177437012097 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 177437012098 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 177437012099 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437012100 Coenzyme A binding pocket [chemical binding]; other site 177437012101 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437012102 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012103 active site 177437012104 phosphorylation site [posttranslational modification] 177437012105 intermolecular recognition site; other site 177437012106 dimerization interface [polypeptide binding]; other site 177437012107 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 177437012108 Walker A motif; other site 177437012109 ATP binding site [chemical binding]; other site 177437012110 Walker B motif; other site 177437012111 arginine finger; other site 177437012112 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 177437012113 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 177437012114 PAS domain; Region: PAS_8; pfam13188 177437012115 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 177437012116 dimer interface [polypeptide binding]; other site 177437012117 phosphorylation site [posttranslational modification] 177437012118 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 177437012119 ATP binding site [chemical binding]; other site 177437012120 Mg2+ binding site [ion binding]; other site 177437012121 G-X-G motif; other site 177437012122 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 177437012123 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 177437012124 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 177437012125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437012126 homodimer interface [polypeptide binding]; other site 177437012127 catalytic residue [active] 177437012128 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_4; cd13144 177437012129 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 177437012130 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 177437012131 catalytic triad [active] 177437012132 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 177437012133 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 177437012134 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 177437012135 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437012136 Coenzyme A binding pocket [chemical binding]; other site 177437012137 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 177437012138 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 177437012139 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 177437012140 NAD(P) binding site [chemical binding]; other site 177437012141 catalytic residues [active] 177437012142 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 177437012143 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437012144 acyl-activating enzyme (AAE) consensus motif; other site 177437012145 AMP binding site [chemical binding]; other site 177437012146 active site 177437012147 CoA binding site [chemical binding]; other site 177437012148 H+ Antiporter protein; Region: 2A0121; TIGR00900 177437012149 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 177437012150 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 177437012151 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 177437012152 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 177437012153 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 177437012154 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 177437012155 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 177437012156 LysE type translocator; Region: LysE; cl00565 177437012157 6-phosphofructokinase; Provisional; Region: PRK03202 177437012158 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 177437012159 dimerization interface [polypeptide binding]; other site 177437012160 allosteric effector site; other site 177437012161 active site 177437012162 ADP/pyrophosphate binding site [chemical binding]; other site 177437012163 fructose-1,6-bisphosphate binding site; other site 177437012164 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 177437012165 CoA-transferase family III; Region: CoA_transf_3; pfam02515 177437012166 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 177437012167 MarR family; Region: MarR; pfam01047 177437012168 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 177437012169 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 177437012170 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 177437012171 dimer interface [polypeptide binding]; other site 177437012172 conserved gate region; other site 177437012173 putative PBP binding loops; other site 177437012174 ABC-ATPase subunit interface; other site 177437012175 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 177437012176 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 177437012177 Walker A/P-loop; other site 177437012178 ATP binding site [chemical binding]; other site 177437012179 Q-loop/lid; other site 177437012180 ABC transporter signature motif; other site 177437012181 Walker B; other site 177437012182 D-loop; other site 177437012183 H-loop/switch region; other site 177437012184 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 177437012185 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 177437012186 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 177437012187 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 177437012188 substrate binding site [chemical binding]; other site 177437012189 multimerization interface [polypeptide binding]; other site 177437012190 ATP binding site [chemical binding]; other site 177437012191 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437012192 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 177437012193 dimer interface [polypeptide binding]; other site 177437012194 phosphorylation site [posttranslational modification] 177437012195 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 177437012196 ATP binding site [chemical binding]; other site 177437012197 Mg2+ binding site [ion binding]; other site 177437012198 G-X-G motif; other site 177437012199 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012200 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012201 active site 177437012202 phosphorylation site [posttranslational modification] 177437012203 intermolecular recognition site; other site 177437012204 dimerization interface [polypeptide binding]; other site 177437012205 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177437012206 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177437012207 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 177437012208 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012210 active site 177437012211 phosphorylation site [posttranslational modification] 177437012212 intermolecular recognition site; other site 177437012213 dimerization interface [polypeptide binding]; other site 177437012214 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012215 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012216 active site 177437012217 phosphorylation site [posttranslational modification] 177437012218 intermolecular recognition site; other site 177437012219 dimerization interface [polypeptide binding]; other site 177437012220 Penicillin amidase; Region: Penicil_amidase; pfam01804 177437012221 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012222 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012223 active site 177437012224 phosphorylation site [posttranslational modification] 177437012225 intermolecular recognition site; other site 177437012226 dimerization interface [polypeptide binding]; other site 177437012227 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 177437012228 dimer interface [polypeptide binding]; other site 177437012229 phosphorylation site [posttranslational modification] 177437012230 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 177437012231 ATP binding site [chemical binding]; other site 177437012232 Mg2+ binding site [ion binding]; other site 177437012233 G-X-G motif; other site 177437012234 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 177437012235 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177437012236 transmembrane helices; other site 177437012237 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012239 active site 177437012240 phosphorylation site [posttranslational modification] 177437012241 intermolecular recognition site; other site 177437012242 dimerization interface [polypeptide binding]; other site 177437012243 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 177437012244 dimer interface [polypeptide binding]; other site 177437012245 phosphorylation site [posttranslational modification] 177437012246 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 177437012247 ATP binding site [chemical binding]; other site 177437012248 G-X-G motif; other site 177437012249 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012250 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012251 active site 177437012252 phosphorylation site [posttranslational modification] 177437012253 intermolecular recognition site; other site 177437012254 dimerization interface [polypeptide binding]; other site 177437012255 FOG: CBS domain [General function prediction only]; Region: COG0517 177437012256 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 177437012257 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177437012258 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 177437012259 transmembrane helices; other site 177437012260 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012261 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012262 active site 177437012263 phosphorylation site [posttranslational modification] 177437012264 intermolecular recognition site; other site 177437012265 dimerization interface [polypeptide binding]; other site 177437012266 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 177437012267 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177437012268 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 177437012269 transmembrane helices; other site 177437012270 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 177437012271 Ligand Binding Site [chemical binding]; other site 177437012272 acyl-CoA synthetase; Validated; Region: PRK08162 177437012273 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 177437012274 acyl-activating enzyme (AAE) consensus motif; other site 177437012275 putative active site [active] 177437012276 AMP binding site [chemical binding]; other site 177437012277 putative CoA binding site [chemical binding]; other site 177437012278 Transcriptional regulators [Transcription]; Region: GntR; COG1802 177437012279 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437012280 DNA-binding site [nucleotide binding]; DNA binding site 177437012281 FCD domain; Region: FCD; pfam07729 177437012282 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 177437012283 Ligand Binding Site [chemical binding]; other site 177437012284 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 177437012285 DctM-like transporters; Region: DctM; pfam06808 177437012286 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 177437012287 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 177437012288 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177437012289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437012290 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177437012291 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177437012292 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 177437012293 dimerization interface [polypeptide binding]; other site 177437012294 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 177437012295 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177437012296 glutamate dehydrogenase 2; Provisional; Region: PTZ00324 177437012297 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 177437012298 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 177437012299 nucleotide binding site/active site [active] 177437012300 HIT family signature motif; other site 177437012301 catalytic residue [active] 177437012302 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 177437012303 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 177437012304 oligomer interface [polypeptide binding]; other site 177437012305 metal binding site [ion binding]; metal-binding site 177437012306 metal binding site [ion binding]; metal-binding site 177437012307 Cl binding site [ion binding]; other site 177437012308 aspartate ring; other site 177437012309 basic sphincter; other site 177437012310 putative hydrophobic gate; other site 177437012311 periplasmic entrance; other site 177437012312 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 177437012313 Ligand binding site [chemical binding]; other site 177437012314 Electron transfer flavoprotein domain; Region: ETF; pfam01012 177437012315 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 177437012316 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 177437012317 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 177437012318 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 177437012319 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 177437012320 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 177437012321 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 177437012322 hypothetical protein; Provisional; Region: PRK07475 177437012323 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 177437012324 dimer interface [polypeptide binding]; other site 177437012325 Citrate synthase; Region: Citrate_synt; pfam00285 177437012326 active site 177437012327 citrylCoA binding site [chemical binding]; other site 177437012328 NADH binding [chemical binding]; other site 177437012329 cationic pore residues; other site 177437012330 oxalacetate/citrate binding site [chemical binding]; other site 177437012331 coenzyme A binding site [chemical binding]; other site 177437012332 catalytic triad [active] 177437012333 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 177437012334 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 177437012335 carboxyltransferase (CT) interaction site; other site 177437012336 biotinylation site [posttranslational modification]; other site 177437012337 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 177437012338 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 177437012339 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437012340 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437012341 active site 177437012342 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 177437012343 TPP-binding site [chemical binding]; other site 177437012344 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 177437012345 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 177437012346 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 177437012347 dimer interface [polypeptide binding]; other site 177437012348 PYR/PP interface [polypeptide binding]; other site 177437012349 TPP binding site [chemical binding]; other site 177437012350 substrate binding site [chemical binding]; other site 177437012351 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177437012352 Transcriptional regulators [Transcription]; Region: GntR; COG1802 177437012353 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437012354 DNA-binding site [nucleotide binding]; DNA binding site 177437012355 FCD domain; Region: FCD; pfam07729 177437012356 Rrf2 family protein; Region: rrf2_super; TIGR00738 177437012357 Transcriptional regulator; Region: Rrf2; pfam02082 177437012358 aldehyde dehydrogenase family 7 member; Region: PLN02315 177437012359 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 177437012360 tetrameric interface [polypeptide binding]; other site 177437012361 NAD binding site [chemical binding]; other site 177437012362 catalytic residues [active] 177437012363 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 177437012364 Elongation factor G C-terminus. This domain includes the carboxyl terminal regions of elongation factors (EFs) bacterial EF-G, eukaryotic and archeal EF-2 and eukaryotic mitochondrial mtEFG1s and mtEFG2s. This group also includes proteins similar to the...; Region: Elongation_Factor_C; cl02785 177437012365 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 177437012366 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 177437012367 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 177437012368 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 177437012369 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 177437012370 carboxyltransferase (CT) interaction site; other site 177437012371 biotinylation site [posttranslational modification]; other site 177437012372 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 177437012373 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437012374 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437012375 active site 177437012376 Coenzyme A transferase; Region: CoA_trans; cl17247 177437012377 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 177437012378 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 177437012379 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 177437012380 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 177437012381 glutamate dehydrogenase 2; Provisional; Region: PTZ00324 177437012382 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 177437012383 DctM-like transporters; Region: DctM; pfam06808 177437012384 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 177437012385 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177437012386 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437012387 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177437012388 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 177437012389 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 177437012390 inhibitor-cofactor binding pocket; inhibition site 177437012391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437012392 catalytic residue [active] 177437012393 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 177437012394 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 177437012395 catalytic loop [active] 177437012396 iron binding site [ion binding]; other site 177437012397 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 177437012398 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 177437012399 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 177437012400 PAS fold; Region: PAS_4; pfam08448 177437012401 PAS domain; Region: PAS; smart00091 177437012402 PAS domain S-box; Region: sensory_box; TIGR00229 177437012403 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 177437012404 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 177437012405 Walker A motif; other site 177437012406 ATP binding site [chemical binding]; other site 177437012407 Walker B motif; other site 177437012408 arginine finger; other site 177437012409 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437012410 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437012411 metal binding site [ion binding]; metal-binding site 177437012412 active site 177437012413 I-site; other site 177437012414 ParB-like nuclease domain; Region: ParB; smart00470 177437012415 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177437012416 active site 177437012417 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437012418 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 177437012419 DctM-like transporters; Region: DctM; pfam06808 177437012420 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177437012421 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177437012422 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 177437012423 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437012424 NAD(P) binding site [chemical binding]; other site 177437012425 active site 177437012426 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 177437012427 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177437012428 putative active site [active] 177437012429 heme pocket [chemical binding]; other site 177437012430 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 177437012431 putative active site [active] 177437012432 heme pocket [chemical binding]; other site 177437012433 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437012434 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 177437012435 dimer interface [polypeptide binding]; other site 177437012436 phosphorylation site [posttranslational modification] 177437012437 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 177437012438 ATP binding site [chemical binding]; other site 177437012439 Mg2+ binding site [ion binding]; other site 177437012440 G-X-G motif; other site 177437012441 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437012442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012443 active site 177437012444 phosphorylation site [posttranslational modification] 177437012445 intermolecular recognition site; other site 177437012446 dimerization interface [polypeptide binding]; other site 177437012447 transaminase; Validated; Region: PRK07324 177437012448 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 177437012449 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437012450 homodimer interface [polypeptide binding]; other site 177437012451 catalytic residue [active] 177437012452 Predicted transcriptional regulators [Transcription]; Region: COG1695 177437012453 Transcriptional regulator PadR-like family; Region: PadR; cl17335 177437012454 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 177437012455 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437012456 4Fe-4S binding domain; Region: Fer4; pfam00037 177437012457 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437012458 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 177437012459 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 177437012460 substrate binding site [chemical binding]; other site 177437012461 oxyanion hole (OAH) forming residues; other site 177437012462 trimer interface [polypeptide binding]; other site 177437012463 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177437012464 PAS domain; Region: PAS; smart00091 177437012465 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177437012466 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 177437012467 dimer interface [polypeptide binding]; other site 177437012468 phosphorylation site [posttranslational modification] 177437012469 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 177437012470 ATP binding site [chemical binding]; other site 177437012471 Mg2+ binding site [ion binding]; other site 177437012472 G-X-G motif; other site 177437012473 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012475 active site 177437012476 phosphorylation site [posttranslational modification] 177437012477 intermolecular recognition site; other site 177437012478 dimerization interface [polypeptide binding]; other site 177437012479 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 177437012480 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 177437012481 hydrogenase 4 subunit B; Validated; Region: PRK06521 177437012482 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177437012483 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 177437012484 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 177437012485 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177437012486 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 177437012487 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 177437012488 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 177437012489 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437012490 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 177437012491 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 177437012492 ATP binding site [chemical binding]; other site 177437012493 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 177437012494 ATP-binding site [chemical binding]; other site 177437012495 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 177437012496 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177437012497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177437012498 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 177437012499 dimerization interface [polypeptide binding]; other site 177437012500 Protein of unknown function, DUF599; Region: DUF599; cl01575 177437012501 peroxiredoxin; Provisional; Region: PRK13189 177437012502 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 177437012503 dimer interface [polypeptide binding]; other site 177437012504 decamer (pentamer of dimers) interface [polypeptide binding]; other site 177437012505 catalytic triad [active] 177437012506 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 177437012507 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 177437012508 active site residue [active] 177437012509 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437012510 Zn2+ binding site [ion binding]; other site 177437012511 Mg2+ binding site [ion binding]; other site 177437012512 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 177437012513 hypothetical protein; Provisional; Region: PRK11622 177437012514 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177437012515 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 177437012516 dimerization interface [polypeptide binding]; other site 177437012517 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 177437012518 PAS fold; Region: PAS_3; pfam08447 177437012519 putative active site [active] 177437012520 heme pocket [chemical binding]; other site 177437012521 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 177437012522 dimer interface [polypeptide binding]; other site 177437012523 phosphorylation site [posttranslational modification] 177437012524 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 177437012525 ATP binding site [chemical binding]; other site 177437012526 Mg2+ binding site [ion binding]; other site 177437012527 G-X-G motif; other site 177437012528 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012530 active site 177437012531 phosphorylation site [posttranslational modification] 177437012532 intermolecular recognition site; other site 177437012533 dimerization interface [polypeptide binding]; other site 177437012534 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 177437012535 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437012536 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 177437012537 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 177437012538 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437012539 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 177437012540 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177437012541 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177437012542 Walker A/P-loop; other site 177437012543 ATP binding site [chemical binding]; other site 177437012544 Q-loop/lid; other site 177437012545 ABC transporter signature motif; other site 177437012546 Walker B; other site 177437012547 D-loop; other site 177437012548 H-loop/switch region; other site 177437012549 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 177437012550 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177437012551 FtsX-like permease family; Region: FtsX; pfam02687 177437012552 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 177437012553 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 177437012554 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; cl02915 177437012555 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 177437012556 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 177437012557 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 177437012558 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 177437012559 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 177437012560 PEP-CTERM motif; Region: VPEP; pfam07589 177437012561 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 177437012562 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 177437012563 active site 177437012564 metal binding site [ion binding]; metal-binding site 177437012565 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 177437012566 bacteriocin maturation radical SAM protein 1; Region: rSAM_ocin_1; TIGR03975 177437012567 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 177437012568 B12 binding site [chemical binding]; other site 177437012569 Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]; Region: TruA; COG0101 177437012570 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 177437012571 active site 177437012572 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 177437012573 binding surface 177437012574 TPR motif; other site 177437012575 TPR repeat; Region: TPR_11; pfam13414 177437012576 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437012577 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 177437012578 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 177437012579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437012580 metal binding site [ion binding]; metal-binding site 177437012581 active site 177437012582 I-site; other site 177437012583 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 177437012584 Sensory domain found in PocR; Region: PocR; pfam10114 177437012585 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 177437012586 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177437012587 putative active site [active] 177437012588 heme pocket [chemical binding]; other site 177437012589 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 177437012590 putative active site [active] 177437012591 heme pocket [chemical binding]; other site 177437012592 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 177437012593 dimer interface [polypeptide binding]; other site 177437012594 phosphorylation site [posttranslational modification] 177437012595 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 177437012596 ATP binding site [chemical binding]; other site 177437012597 Mg2+ binding site [ion binding]; other site 177437012598 G-X-G motif; other site 177437012599 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437012600 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012601 active site 177437012602 phosphorylation site [posttranslational modification] 177437012603 intermolecular recognition site; other site 177437012604 dimerization interface [polypeptide binding]; other site 177437012605 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 177437012606 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 177437012607 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 177437012608 PAS domain; Region: PAS_9; pfam13426 177437012609 putative active site [active] 177437012610 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437012611 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437012612 metal binding site [ion binding]; metal-binding site 177437012613 active site 177437012614 I-site; other site 177437012615 PilZ domain; Region: PilZ; pfam07238 177437012616 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 177437012617 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 177437012618 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 177437012619 transposase/IS protein; Provisional; Region: PRK09183 177437012620 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 177437012621 Walker A motif; other site 177437012622 ATP binding site [chemical binding]; other site 177437012623 Walker B motif; other site 177437012624 arginine finger; other site 177437012625 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 177437012626 Integrase core domain; Region: rve; pfam00665 177437012627 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 177437012628 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 177437012629 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 177437012630 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 177437012631 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 177437012632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 177437012633 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 177437012634 Transcriptional regulators [Transcription]; Region: MarR; COG1846 177437012635 MarR family; Region: MarR_2; pfam12802 177437012636 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 177437012637 OsmC-like protein; Region: OsmC; pfam02566 177437012638 OsmC-like protein; Region: OsmC; pfam02566 177437012639 SEC-C motif; Region: SEC-C; pfam02810 177437012640 photolyase PhrII; Region: phr2; TIGR00591 177437012641 DNA photolyase; Region: DNA_photolyase; pfam00875 177437012642 SOUL heme-binding protein; Region: SOUL; pfam04832 177437012643 Uncharacterized conserved protein [Function unknown]; Region: COG1433 177437012644 Predicted permease; Region: DUF318; cl17795 177437012645 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 177437012646 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 177437012647 Probable transposase; Region: OrfB_IS605; pfam01385 177437012648 Transposase IS200 like; Region: Y1_Tnp; pfam01797 177437012649 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 177437012650 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 177437012651 putative active site [active] 177437012652 metal binding site [ion binding]; metal-binding site 177437012653 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 177437012654 PLD-like domain; Region: PLDc_2; pfam13091 177437012655 putative homodimer interface [polypeptide binding]; other site 177437012656 putative active site [active] 177437012657 catalytic site [active] 177437012658 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 177437012659 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 177437012660 putative Mg++ binding site [ion binding]; other site 177437012661 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 177437012662 nucleotide binding region [chemical binding]; other site 177437012663 ATP-binding site [chemical binding]; other site 177437012664 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 177437012665 Protein of unknown function DUF91; Region: DUF91; cl00709 177437012666 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177437012667 Tetratricopeptide repeat; Region: TPR_10; pfam13374 177437012668 Nuclease-related domain; Region: NERD; pfam08378 177437012669 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 177437012670 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b3; cd09205 177437012671 PLD-like domain; Region: PLDc_2; pfam13091 177437012672 putative homodimer interface [polypeptide binding]; other site 177437012673 putative active site [active] 177437012674 catalytic site [active] 177437012675 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 177437012676 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 177437012677 ATP binding site [chemical binding]; other site 177437012678 putative Mg++ binding site [ion binding]; other site 177437012679 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 177437012680 nucleotide binding region [chemical binding]; other site 177437012681 ATP-binding site [chemical binding]; other site 177437012682 Predicted transcriptional regulator [Transcription]; Region: COG2932 177437012683 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 177437012684 Catalytic site [active] 177437012685 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177437012686 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 177437012687 S-adenosylmethionine binding site [chemical binding]; other site 177437012688 Uncharacterized conserved protein [Function unknown]; Region: COG1432 177437012689 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 177437012690 putative metal binding site [ion binding]; other site 177437012691 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 177437012692 Nuclease-related domain; Region: NERD; pfam08378 177437012693 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 177437012694 phosphate binding site [ion binding]; other site 177437012695 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177437012696 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 177437012697 dimerization interface [polypeptide binding]; other site 177437012698 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437012699 dimer interface [polypeptide binding]; other site 177437012700 putative CheW interface [polypeptide binding]; other site 177437012701 SMUG: single-strand-selective monofunctional uracil-DNA glycosylase; Region: UDG_F3_SMUG; cd10029 177437012702 active site 177437012703 substrate specificity residue; other site 177437012704 DNA binding site [nucleotide binding] 177437012705 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 177437012706 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 177437012707 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437012708 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 177437012709 putative FMN binding site [chemical binding]; other site 177437012710 short chain dehydrogenase; Provisional; Region: PRK08267 177437012711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437012712 NAD(P) binding site [chemical binding]; other site 177437012713 active site 177437012714 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 177437012715 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 177437012716 active site 177437012717 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437012718 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 177437012719 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 177437012720 active site 177437012721 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 177437012722 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437012723 active site 177437012724 CoA binding site [chemical binding]; other site 177437012725 AMP binding site [chemical binding]; other site 177437012726 AAA domain; Region: AAA_22; pfam13401 177437012727 Integrase core domain; Region: rve; pfam00665 177437012728 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437012729 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 177437012730 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437012731 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437012732 acyl-activating enzyme (AAE) consensus motif; other site 177437012733 acyl-activating enzyme (AAE) consensus motif; other site 177437012734 SCP-2 sterol transfer family; Region: SCP2; pfam02036 177437012735 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 177437012736 GAF domain; Region: GAF; cl17456 177437012737 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 177437012738 Walker A motif; other site 177437012739 ATP binding site [chemical binding]; other site 177437012740 Walker B motif; other site 177437012741 arginine finger; other site 177437012742 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437012743 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 177437012744 non-specific DNA binding site [nucleotide binding]; other site 177437012745 salt bridge; other site 177437012746 sequence-specific DNA binding site [nucleotide binding]; other site 177437012747 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437012748 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437012749 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 177437012750 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 177437012751 putative MPT binding site; other site 177437012752 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437012753 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 177437012754 substrate binding pocket [chemical binding]; other site 177437012755 membrane-bound complex binding site; other site 177437012756 hinge residues; other site 177437012757 GAF domain; Region: GAF_2; pfam13185 177437012758 GAF domain; Region: GAF; cl17456 177437012759 PAS domain S-box; Region: sensory_box; TIGR00229 177437012760 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 177437012761 dimer interface [polypeptide binding]; other site 177437012762 phosphorylation site [posttranslational modification] 177437012763 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 177437012764 ATP binding site [chemical binding]; other site 177437012765 Mg2+ binding site [ion binding]; other site 177437012766 G-X-G motif; other site 177437012767 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012768 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012769 active site 177437012770 phosphorylation site [posttranslational modification] 177437012771 intermolecular recognition site; other site 177437012772 dimerization interface [polypeptide binding]; other site 177437012773 acyl-CoA synthetase; Validated; Region: PRK05850 177437012774 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 177437012775 acyl-activating enzyme (AAE) consensus motif; other site 177437012776 active site 177437012777 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 177437012778 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177437012779 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437012780 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437012781 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 177437012782 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 177437012783 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 177437012784 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 177437012785 Ligand Binding Site [chemical binding]; other site 177437012786 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 177437012787 Ligand Binding Site [chemical binding]; other site 177437012788 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 177437012789 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 177437012790 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 177437012791 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437012792 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437012793 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177437012794 EamA-like transporter family; Region: EamA; cl17759 177437012795 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437012796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012797 active site 177437012798 phosphorylation site [posttranslational modification] 177437012799 intermolecular recognition site; other site 177437012800 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 177437012801 Ligand Binding Site [chemical binding]; other site 177437012802 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 177437012803 Ligand Binding Site [chemical binding]; other site 177437012804 FOG: CBS domain [General function prediction only]; Region: COG0517 177437012805 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 177437012806 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 177437012807 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437012808 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012809 active site 177437012810 phosphorylation site [posttranslational modification] 177437012811 intermolecular recognition site; other site 177437012812 dimerization interface [polypeptide binding]; other site 177437012813 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 177437012814 Walker A motif; other site 177437012815 ATP binding site [chemical binding]; other site 177437012816 Walker B motif; other site 177437012817 arginine finger; other site 177437012818 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437012819 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 177437012820 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 177437012821 phosphorylation site [posttranslational modification] 177437012822 dimer interface [polypeptide binding]; other site 177437012823 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 177437012824 ATP binding site [chemical binding]; other site 177437012825 Mg2+ binding site [ion binding]; other site 177437012826 G-X-G motif; other site 177437012827 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 177437012828 putative trimer interface [polypeptide binding]; other site 177437012829 putative CoA binding site [chemical binding]; other site 177437012830 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 177437012831 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177437012832 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 177437012833 transmembrane helices; other site 177437012834 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012835 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012836 active site 177437012837 phosphorylation site [posttranslational modification] 177437012838 intermolecular recognition site; other site 177437012839 dimerization interface [polypeptide binding]; other site 177437012840 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 177437012841 dimer interface [polypeptide binding]; other site 177437012842 phosphorylation site [posttranslational modification] 177437012843 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012844 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012845 active site 177437012846 phosphorylation site [posttranslational modification] 177437012847 intermolecular recognition site; other site 177437012848 dimerization interface [polypeptide binding]; other site 177437012849 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437012850 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 177437012851 dimer interface [polypeptide binding]; other site 177437012852 phosphorylation site [posttranslational modification] 177437012853 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 177437012854 ATP binding site [chemical binding]; other site 177437012855 Mg2+ binding site [ion binding]; other site 177437012856 G-X-G motif; other site 177437012857 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 177437012858 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012859 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012860 active site 177437012861 phosphorylation site [posttranslational modification] 177437012862 intermolecular recognition site; other site 177437012863 dimerization interface [polypeptide binding]; other site 177437012864 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 177437012865 Sulfate transporter family; Region: Sulfate_transp; pfam00916 177437012866 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 177437012867 Sulfate transporter family; Region: Sulfate_transp; pfam00916 177437012868 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 177437012869 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437012870 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437012871 Response regulator receiver domain; Region: Response_reg; pfam00072 177437012872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437012873 active site 177437012874 phosphorylation site [posttranslational modification] 177437012875 intermolecular recognition site; other site 177437012876 dimerization interface [polypeptide binding]; other site 177437012877 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437012878 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437012879 putative substrate translocation pore; other site 177437012880 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 177437012881 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 177437012882 active site 177437012883 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 177437012884 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 177437012885 Walker A/P-loop; other site 177437012886 ATP binding site [chemical binding]; other site 177437012887 ABC transporter; Region: ABC_tran; pfam00005 177437012888 Q-loop/lid; other site 177437012889 ABC transporter signature motif; other site 177437012890 Walker B; other site 177437012891 D-loop; other site 177437012892 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 177437012893 Domain of unknown function DUF; Region: DUF204; pfam02659 177437012894 Domain of unknown function DUF; Region: DUF204; pfam02659 177437012895 multifunctional aminopeptidase A; Provisional; Region: PRK00913 177437012896 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 177437012897 interface (dimer of trimers) [polypeptide binding]; other site 177437012898 Substrate-binding/catalytic site; other site 177437012899 Zn-binding sites [ion binding]; other site 177437012900 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 177437012901 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 177437012902 S1 domain; Region: S1_2; pfam13509 177437012903 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 177437012904 RNA binding site [nucleotide binding]; other site 177437012905 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 177437012906 heme-binding residues [chemical binding]; other site 177437012907 ATP-dependent helicase HepA; Validated; Region: PRK04914 177437012908 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 177437012909 ATP binding site [chemical binding]; other site 177437012910 putative Mg++ binding site [ion binding]; other site 177437012911 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 177437012912 nucleotide binding region [chemical binding]; other site 177437012913 ATP-binding site [chemical binding]; other site 177437012914 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 177437012915 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 177437012916 ATP binding site [chemical binding]; other site 177437012917 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 177437012918 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 177437012919 NMT1/THI5 like; Region: NMT1; pfam09084 177437012920 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437012921 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 177437012922 substrate binding pocket [chemical binding]; other site 177437012923 membrane-bound complex binding site; other site 177437012924 hinge residues; other site 177437012925 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437012926 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 177437012927 substrate binding pocket [chemical binding]; other site 177437012928 membrane-bound complex binding site; other site 177437012929 hinge residues; other site 177437012930 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 177437012931 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 177437012932 substrate binding pocket [chemical binding]; other site 177437012933 membrane-bound complex binding site; other site 177437012934 hinge residues; other site 177437012935 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437012936 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437012937 metal binding site [ion binding]; metal-binding site 177437012938 active site 177437012939 I-site; other site 177437012940 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 177437012941 Part of AAA domain; Region: AAA_19; pfam13245 177437012942 Family description; Region: UvrD_C_2; pfam13538 177437012943 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 177437012944 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 177437012945 active site 177437012946 substrate binding site [chemical binding]; other site 177437012947 metal binding site [ion binding]; metal-binding site 177437012948 Bacitracin resistance protein BacA; Region: BacA; pfam02673 177437012949 hybrid cluster protein; Provisional; Region: PRK05290 177437012950 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 177437012951 ACS interaction site; other site 177437012952 CODH interaction site; other site 177437012953 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 177437012954 ACS interaction site; other site 177437012955 CODH interaction site; other site 177437012956 metal cluster binding site [ion binding]; other site 177437012957 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437012958 Zn2+ binding site [ion binding]; other site 177437012959 Mg2+ binding site [ion binding]; other site 177437012960 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 177437012961 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177437012962 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437012963 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437012964 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 177437012965 ligand binding site [chemical binding]; other site 177437012966 flexible hinge region; other site 177437012967 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 177437012968 putative switch regulator; other site 177437012969 non-specific DNA interactions [nucleotide binding]; other site 177437012970 DNA binding site [nucleotide binding] 177437012971 sequence specific DNA binding site [nucleotide binding]; other site 177437012972 putative cAMP binding site [chemical binding]; other site 177437012973 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 177437012974 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 177437012975 MOFRL family; Region: MOFRL; pfam05161 177437012976 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 177437012977 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 177437012978 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 177437012979 pyrroline-5-carboxylate reductase; Region: PLN02688 177437012980 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 177437012981 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 177437012982 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 177437012983 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 177437012984 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 177437012985 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 177437012986 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 177437012987 Rubredoxin; Region: Rubredoxin; pfam00301 177437012988 iron binding site [ion binding]; other site 177437012989 Uncharacterized conserved protein [Function unknown]; Region: COG1633 177437012990 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 177437012991 diiron binding motif [ion binding]; other site 177437012992 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 177437012993 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 177437012994 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 177437012995 dimer interface [polypeptide binding]; other site 177437012996 PYR/PP interface [polypeptide binding]; other site 177437012997 TPP binding site [chemical binding]; other site 177437012998 substrate binding site [chemical binding]; other site 177437012999 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 177437013000 TPP-binding site; other site 177437013001 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 177437013002 DHH family; Region: DHH; pfam01368 177437013003 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 177437013004 putative hydrophobic ligand binding site [chemical binding]; other site 177437013005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437013006 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 177437013007 NAD(P) binding site [chemical binding]; other site 177437013008 active site 177437013009 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177437013010 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 177437013011 dimer interface [polypeptide binding]; other site 177437013012 conserved gate region; other site 177437013013 putative PBP binding loops; other site 177437013014 ABC-ATPase subunit interface; other site 177437013015 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 177437013016 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437013017 substrate binding pocket [chemical binding]; other site 177437013018 membrane-bound complex binding site; other site 177437013019 hinge residues; other site 177437013020 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177437013021 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 177437013022 dimer interface [polypeptide binding]; other site 177437013023 conserved gate region; other site 177437013024 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 177437013025 ABC-ATPase subunit interface; other site 177437013026 Bacterial SH3 domain; Region: SH3_3; pfam08239 177437013027 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 177437013028 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 177437013029 Catalytic site [active] 177437013030 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 177437013031 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 177437013032 active site 177437013033 DNA binding site [nucleotide binding] 177437013034 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 177437013035 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 177437013036 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 177437013037 FeS/SAM binding site; other site 177437013038 Methyltransferase domain; Region: Methyltransf_31; pfam13847 177437013039 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 177437013040 S-adenosylmethionine binding site [chemical binding]; other site 177437013041 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 177437013042 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 177437013043 dimer interface [polypeptide binding]; other site 177437013044 catalytic triad [active] 177437013045 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177437013046 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 177437013047 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 177437013048 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 177437013049 [4Fe-4S] binding site [ion binding]; other site 177437013050 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 177437013051 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 177437013052 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 177437013053 molybdopterin cofactor binding site; other site 177437013054 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 177437013055 putative catalytic site [active] 177437013056 putative metal binding site [ion binding]; other site 177437013057 putative phosphate binding site [ion binding]; other site 177437013058 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 177437013059 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 177437013060 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 177437013061 ACS interaction site; other site 177437013062 CODH interaction site; other site 177437013063 metal cluster binding site [ion binding]; other site 177437013064 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 177437013065 diiron binding motif [ion binding]; other site 177437013066 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 177437013067 isocitrate dehydrogenase; Validated; Region: PRK07362 177437013068 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 177437013069 Rubredoxin; Region: Rubredoxin; pfam00301 177437013070 iron binding site [ion binding]; other site 177437013071 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 177437013072 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 177437013073 Citrate synthase; Region: Citrate_synt; pfam00285 177437013074 oxalacetate binding site [chemical binding]; other site 177437013075 citrylCoA binding site [chemical binding]; other site 177437013076 coenzyme A binding site [chemical binding]; other site 177437013077 catalytic triad [active] 177437013078 Ferredoxin thioredoxin reductase catalytic beta chain; Region: FeThRed_B; cl01977 177437013079 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 177437013080 catalytic residues [active] 177437013081 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; cl00236 177437013082 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 177437013083 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 177437013084 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 177437013085 dimer interface [polypeptide binding]; other site 177437013086 PYR/PP interface [polypeptide binding]; other site 177437013087 TPP binding site [chemical binding]; other site 177437013088 substrate binding site [chemical binding]; other site 177437013089 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177437013090 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 177437013091 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 177437013092 TPP-binding site [chemical binding]; other site 177437013093 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 177437013094 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 177437013095 active site 177437013096 substrate binding site [chemical binding]; other site 177437013097 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 177437013098 FMN binding site [chemical binding]; other site 177437013099 putative catalytic residues [active] 177437013100 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 177437013101 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 177437013102 trimerization site [polypeptide binding]; other site 177437013103 active site 177437013104 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 177437013105 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 177437013106 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 177437013107 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177437013108 catalytic residue [active] 177437013109 EamA-like transporter family; Region: EamA; pfam00892 177437013110 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 177437013111 EamA-like transporter family; Region: EamA; pfam00892 177437013112 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177437013113 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 177437013114 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437013115 Zn2+ binding site [ion binding]; other site 177437013116 Mg2+ binding site [ion binding]; other site 177437013117 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437013118 phosphoenolpyruvate carboxykinase; Provisional; Region: PRK04210 177437013119 active site 177437013120 metal-binding site [ion binding] 177437013121 nucleotide-binding site [chemical binding]; other site 177437013122 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 177437013123 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 177437013124 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 177437013125 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177437013126 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 177437013127 Walker A/P-loop; other site 177437013128 ATP binding site [chemical binding]; other site 177437013129 Q-loop/lid; other site 177437013130 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437013131 Q-loop/lid; other site 177437013132 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 177437013133 ABC transporter signature motif; other site 177437013134 Walker B; other site 177437013135 D-loop; other site 177437013136 H-loop/switch region; other site 177437013137 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437013138 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 177437013139 ligand binding site [chemical binding]; other site 177437013140 flexible hinge region; other site 177437013141 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 177437013142 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 177437013143 Mg2+ binding site [ion binding]; other site 177437013144 G-X-G motif; other site 177437013145 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 177437013146 anti sigma factor interaction site; other site 177437013147 regulatory phosphorylation site [posttranslational modification]; other site 177437013148 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 177437013149 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 177437013150 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 177437013151 Walker A/P-loop; other site 177437013152 ATP binding site [chemical binding]; other site 177437013153 Q-loop/lid; other site 177437013154 ABC transporter signature motif; other site 177437013155 Walker B; other site 177437013156 D-loop; other site 177437013157 H-loop/switch region; other site 177437013158 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 177437013159 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437013160 acyl-activating enzyme (AAE) consensus motif; other site 177437013161 active site 177437013162 AMP binding site [chemical binding]; other site 177437013163 CoA binding site [chemical binding]; other site 177437013164 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 177437013165 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 177437013166 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 177437013167 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 177437013168 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 177437013169 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 177437013170 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 177437013171 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 177437013172 motif II; other site 177437013173 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 177437013174 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 177437013175 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 177437013176 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 177437013177 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 177437013178 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 177437013179 putative active site [active] 177437013180 PhoH-like protein; Region: PhoH; pfam02562 177437013181 Cache domain; Region: Cache_1; pfam02743 177437013182 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437013183 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 177437013184 dimer interface [polypeptide binding]; other site 177437013185 phosphorylation site [posttranslational modification] 177437013186 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 177437013187 Putative transposase; Region: Y2_Tnp; pfam04986 177437013188 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 177437013189 putative ADP-ribose binding site [chemical binding]; other site 177437013190 putative active site [active] 177437013191 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 177437013192 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 177437013193 metal binding site [ion binding]; metal-binding site 177437013194 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177437013195 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 177437013196 FtsX-like permease family; Region: FtsX; pfam02687 177437013197 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177437013198 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177437013199 Walker A/P-loop; other site 177437013200 ATP binding site [chemical binding]; other site 177437013201 Q-loop/lid; other site 177437013202 ABC transporter signature motif; other site 177437013203 Walker B; other site 177437013204 D-loop; other site 177437013205 H-loop/switch region; other site 177437013206 FtsX-like permease family; Region: FtsX; pfam02687 177437013207 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 177437013208 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 177437013209 GSCFA family; Region: GSCFA; pfam08885 177437013210 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 177437013211 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 177437013212 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177437013213 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 177437013214 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 177437013215 Walker A/P-loop; other site 177437013216 ATP binding site [chemical binding]; other site 177437013217 Q-loop/lid; other site 177437013218 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 177437013219 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437013220 ABC transporter signature motif; other site 177437013221 Walker B; other site 177437013222 D-loop; other site 177437013223 H-loop/switch region; other site 177437013224 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 177437013225 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 177437013226 ligand binding site [chemical binding]; other site 177437013227 flexible hinge region; other site 177437013228 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 177437013229 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437013230 putative substrate translocation pore; other site 177437013231 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437013232 hypothetical protein; Validated; Region: PRK06840 177437013233 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 177437013234 active site 177437013235 enoyl-CoA hydratase; Provisional; Region: PRK06688 177437013236 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 177437013237 substrate binding site [chemical binding]; other site 177437013238 oxyanion hole (OAH) forming residues; other site 177437013239 trimer interface [polypeptide binding]; other site 177437013240 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 177437013241 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 177437013242 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 177437013243 molybdopterin cofactor binding site; other site 177437013244 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 177437013245 molybdopterin cofactor binding site; other site 177437013246 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177437013247 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437013248 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 177437013249 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 177437013250 NodB motif; other site 177437013251 putative active site [active] 177437013252 putative catalytic site [active] 177437013253 putative Zn binding site [ion binding]; other site 177437013254 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 177437013255 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 177437013256 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 177437013257 catalytic core [active] 177437013258 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 177437013259 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177437013260 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 177437013261 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 177437013262 putative ADP-binding pocket [chemical binding]; other site 177437013263 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 177437013264 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 177437013265 PAS domain; Region: PAS; smart00091 177437013266 PAS domain; Region: PAS_9; pfam13426 177437013267 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 177437013268 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 177437013269 Walker A motif; other site 177437013270 ATP binding site [chemical binding]; other site 177437013271 Walker B motif; other site 177437013272 arginine finger; other site 177437013273 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 177437013274 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 177437013275 4Fe-4S binding domain; Region: Fer4; pfam00037 177437013276 4Fe-4S binding domain; Region: Fer4; pfam00037 177437013277 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 177437013278 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 177437013279 Walker A/P-loop; other site 177437013280 ATP binding site [chemical binding]; other site 177437013281 Q-loop/lid; other site 177437013282 ABC transporter signature motif; other site 177437013283 Walker B; other site 177437013284 D-loop; other site 177437013285 H-loop/switch region; other site 177437013286 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 177437013287 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 177437013288 ABC-ATPase subunit interface; other site 177437013289 dimer interface [polypeptide binding]; other site 177437013290 putative PBP binding regions; other site 177437013291 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 177437013292 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 177437013293 cobalamin binding residues [chemical binding]; other site 177437013294 putative BtuC binding residues; other site 177437013295 dimer interface [polypeptide binding]; other site 177437013296 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 177437013297 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437013298 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 177437013299 non-specific DNA binding site [nucleotide binding]; other site 177437013300 salt bridge; other site 177437013301 sequence-specific DNA binding site [nucleotide binding]; other site 177437013302 Cupin domain; Region: Cupin_2; pfam07883 177437013303 AMP-binding domain protein; Validated; Region: PRK08315 177437013304 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437013305 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 177437013306 acyl-activating enzyme (AAE) consensus motif; other site 177437013307 putative AMP binding site [chemical binding]; other site 177437013308 putative active site [active] 177437013309 putative CoA binding site [chemical binding]; other site 177437013310 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437013311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437013312 active site 177437013313 phosphorylation site [posttranslational modification] 177437013314 intermolecular recognition site; other site 177437013315 dimerization interface [polypeptide binding]; other site 177437013316 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 177437013317 Walker A motif; other site 177437013318 ATP binding site [chemical binding]; other site 177437013319 Walker B motif; other site 177437013320 arginine finger; other site 177437013321 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 177437013322 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 177437013323 heme pocket [chemical binding]; other site 177437013324 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 177437013325 phosphorylation site [posttranslational modification] 177437013326 dimer interface [polypeptide binding]; other site 177437013327 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 177437013328 ATP binding site [chemical binding]; other site 177437013329 Mg2+ binding site [ion binding]; other site 177437013330 G-X-G motif; other site 177437013331 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 177437013332 dimer interface [polypeptide binding]; other site 177437013333 hypothetical protein; Validated; Region: PRK02101 177437013334 Response regulator receiver domain; Region: Response_reg; pfam00072 177437013335 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437013336 active site 177437013337 phosphorylation site [posttranslational modification] 177437013338 intermolecular recognition site; other site 177437013339 dimerization interface [polypeptide binding]; other site 177437013340 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 177437013341 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 177437013342 putative active site [active] 177437013343 heme pocket [chemical binding]; other site 177437013344 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 177437013345 putative active site [active] 177437013346 heme pocket [chemical binding]; other site 177437013347 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 177437013348 phosphorylation site [posttranslational modification] 177437013349 dimer interface [polypeptide binding]; other site 177437013350 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 177437013351 ATP binding site [chemical binding]; other site 177437013352 Mg2+ binding site [ion binding]; other site 177437013353 G-X-G motif; other site 177437013354 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437013355 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 177437013356 substrate binding pocket [chemical binding]; other site 177437013357 membrane-bound complex binding site; other site 177437013358 hinge residues; other site 177437013359 PBP superfamily domain; Region: PBP_like_2; cl17296 177437013360 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 177437013361 PAS domain S-box; Region: sensory_box; TIGR00229 177437013362 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437013363 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437013364 metal binding site [ion binding]; metal-binding site 177437013365 active site 177437013366 I-site; other site 177437013367 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 177437013368 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 177437013369 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 177437013370 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 177437013371 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 177437013372 Low molecular weight phosphatase family; Region: LMWPc; cl00105 177437013373 active site 177437013374 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 177437013375 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 177437013376 iron binding site [ion binding]; other site 177437013377 glutamate dehydrogenase 2; Provisional; Region: PTZ00324 177437013378 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 177437013379 Rubredoxin [Energy production and conversion]; Region: COG1773 177437013380 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 177437013381 iron binding site [ion binding]; other site 177437013382 Uncharacterized conserved protein [Function unknown]; Region: COG1633 177437013383 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 177437013384 diiron binding motif [ion binding]; other site 177437013385 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 177437013386 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 177437013387 non-heme iron binding site [ion binding]; other site 177437013388 dimer interface [polypeptide binding]; other site 177437013389 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 177437013390 non-heme iron binding site [ion binding]; other site 177437013391 dimer interface [polypeptide binding]; other site 177437013392 Rubrerythrin [Energy production and conversion]; Region: COG1592 177437013393 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 177437013394 binuclear metal center [ion binding]; other site 177437013395 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 177437013396 iron binding site [ion binding]; other site 177437013397 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 177437013398 PAS domain; Region: PAS_9; pfam13426 177437013399 putative active site [active] 177437013400 heme pocket [chemical binding]; other site 177437013401 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177437013402 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 177437013403 Walker A motif; other site 177437013404 ATP binding site [chemical binding]; other site 177437013405 Walker B motif; other site 177437013406 arginine finger; other site 177437013407 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 177437013408 DNA-binding interface [nucleotide binding]; DNA binding site 177437013409 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 177437013410 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 177437013411 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 177437013412 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 177437013413 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 177437013414 Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E); Region: PHA_synth_III_E; cl09914 177437013415 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 177437013416 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 177437013417 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 177437013418 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177437013419 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 177437013420 GAF domain; Region: GAF_3; pfam13492 177437013421 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 177437013422 dimer interaction site [polypeptide binding]; other site 177437013423 substrate-binding tunnel; other site 177437013424 active site 177437013425 catalytic site [active] 177437013426 substrate binding site [chemical binding]; other site 177437013427 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 177437013428 non-specific DNA binding site [nucleotide binding]; other site 177437013429 salt bridge; other site 177437013430 sequence-specific DNA binding site [nucleotide binding]; other site 177437013431 enoyl-CoA hydratase; Provisional; Region: PRK06142 177437013432 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 177437013433 substrate binding site [chemical binding]; other site 177437013434 oxyanion hole (OAH) forming residues; other site 177437013435 trimer interface [polypeptide binding]; other site 177437013436 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 177437013437 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177437013438 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437013439 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177437013440 phage shock protein C; Region: phageshock_pspC; TIGR02978 177437013441 PspC domain; Region: PspC; pfam04024 177437013442 phage shock protein B; Region: phageshock_pspB; TIGR02976 177437013443 phage shock protein A; Region: phageshock_pspA; TIGR02977 177437013444 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177437013445 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 177437013446 Walker A motif; other site 177437013447 ATP binding site [chemical binding]; other site 177437013448 Walker B motif; other site 177437013449 arginine finger; other site 177437013450 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 177437013451 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 177437013452 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 177437013453 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 177437013454 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 177437013455 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 177437013456 substrate binding site [chemical binding]; other site 177437013457 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 177437013458 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 177437013459 phosphoserine phosphatase SerB; Region: serB; TIGR00338 177437013460 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 177437013461 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 177437013462 motif II; other site 177437013463 Predicted transcriptional regulators [Transcription]; Region: COG1378 177437013464 Sugar-specific transcriptional regulator TrmB; Region: TrmB; pfam01978 177437013465 Middle phospholipase D-like domain of the transcriptional regulator TrmB and similar proteins; Region: PLDc_like_TrmB_middle; cd09124 177437013466 C-terminal domain interface [polypeptide binding]; other site 177437013467 sugar binding site [chemical binding]; other site 177437013468 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 177437013469 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 177437013470 inhibitor-cofactor binding pocket; inhibition site 177437013471 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437013472 catalytic residue [active] 177437013473 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 177437013474 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 177437013475 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 177437013476 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 177437013477 Beta-Casp domain; Region: Beta-Casp; smart01027 177437013478 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 177437013479 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 177437013480 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 177437013481 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 177437013482 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 177437013483 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 177437013484 ATP binding site [chemical binding]; other site 177437013485 Mg++ binding site [ion binding]; other site 177437013486 motif III; other site 177437013487 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 177437013488 nucleotide binding region [chemical binding]; other site 177437013489 ATP-binding site [chemical binding]; other site 177437013490 twin arginine translocase protein A; Provisional; Region: tatA; PRK14858 177437013491 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 177437013492 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 177437013493 heme-binding residues [chemical binding]; other site 177437013494 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 177437013495 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 177437013496 catalytic triad [active] 177437013497 Dissimilatory sulfite reductase D (DsrD); Region: DsrD; pfam08679 177437013498 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 177437013499 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 177437013500 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 177437013501 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 177437013502 binding surface 177437013503 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437013504 TPR motif; other site 177437013505 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 177437013506 binding surface 177437013507 TPR motif; other site 177437013508 TPR repeat; Region: TPR_11; pfam13414 177437013509 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 177437013510 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 177437013511 dimer interface [polypeptide binding]; other site 177437013512 active site 177437013513 catalytic residue [active] 177437013514 Flagellin N-methylase; Region: FliB; cl00497 177437013515 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 177437013516 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 177437013517 P loop nucleotide binding; other site 177437013518 switch II; other site 177437013519 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 177437013520 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 177437013521 switch II; other site 177437013522 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 177437013523 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 177437013524 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177437013525 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437013526 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177437013527 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 177437013528 active site 177437013529 tetramer interface; other site 177437013530 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 177437013531 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 177437013532 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177437013533 catalytic residue [active] 177437013534 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 177437013535 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 177437013536 Part of AAA domain; Region: AAA_19; pfam13245 177437013537 Family description; Region: UvrD_C_2; pfam13538 177437013538 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177437013539 Soluble P-type ATPase [General function prediction only]; Region: COG4087 177437013540 Cupin domain; Region: Cupin_2; pfam07883 177437013541 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 177437013542 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 177437013543 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 177437013544 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 177437013545 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 177437013546 AsmA family; Region: AsmA; pfam05170 177437013547 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 177437013548 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 177437013549 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 177437013550 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177437013551 Flagellin N-methylase; Region: FliB; cl00497 177437013552 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 177437013553 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 177437013554 G1 box; other site 177437013555 GTP/Mg2+ binding site [chemical binding]; other site 177437013556 Switch I region; other site 177437013557 G2 box; other site 177437013558 G3 box; other site 177437013559 Switch II region; other site 177437013560 G4 box; other site 177437013561 G5 box; other site 177437013562 Nucleoside recognition; Region: Gate; pfam07670 177437013563 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 177437013564 Nucleoside recognition; Region: Gate; pfam07670 177437013565 FeoA domain; Region: FeoA; pfam04023 177437013566 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 177437013567 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 177437013568 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 177437013569 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 177437013570 active site 177437013571 metal binding site [ion binding]; metal-binding site 177437013572 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 177437013573 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 177437013574 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 177437013575 ParB-like nuclease domain; Region: ParB; smart00470 177437013576 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 177437013577 AsnC family; Region: AsnC_trans_reg; pfam01037 177437013578 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 177437013579 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177437013580 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 177437013581 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 177437013582 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 177437013583 dimer interface [polypeptide binding]; other site 177437013584 PYR/PP interface [polypeptide binding]; other site 177437013585 TPP binding site [chemical binding]; other site 177437013586 substrate binding site [chemical binding]; other site 177437013587 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 177437013588 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 177437013589 TPP-binding site [chemical binding]; other site 177437013590 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 177437013591 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 177437013592 putative active site [active] 177437013593 catalytic site [active] 177437013594 putative metal binding site [ion binding]; other site 177437013595 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177437013596 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_cladeC; cd03378 177437013597 active site clefts [active] 177437013598 zinc binding site [ion binding]; other site 177437013599 dimer interface [polypeptide binding]; other site 177437013600 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 177437013601 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437013602 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 177437013603 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177437013604 DctM-like transporters; Region: DctM; pfam06808 177437013605 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177437013606 aspartate aminotransferase; Provisional; Region: PRK05764 177437013607 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 177437013608 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437013609 homodimer interface [polypeptide binding]; other site 177437013610 catalytic residue [active] 177437013611 Ion transport protein; Region: Ion_trans; pfam00520 177437013612 Ion channel; Region: Ion_trans_2; pfam07885 177437013613 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 177437013614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437013615 active site 177437013616 phosphorylation site [posttranslational modification] 177437013617 intermolecular recognition site; other site 177437013618 dimerization interface [polypeptide binding]; other site 177437013619 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 177437013620 DNA binding site [nucleotide binding] 177437013621 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 177437013622 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 177437013623 dimerization interface [polypeptide binding]; other site 177437013624 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 177437013625 dimer interface [polypeptide binding]; other site 177437013626 phosphorylation site [posttranslational modification] 177437013627 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 177437013628 ATP binding site [chemical binding]; other site 177437013629 Mg2+ binding site [ion binding]; other site 177437013630 G-X-G motif; other site 177437013631 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 177437013632 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 177437013633 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 177437013634 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177437013635 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177437013636 Walker A/P-loop; other site 177437013637 ATP binding site [chemical binding]; other site 177437013638 Q-loop/lid; other site 177437013639 ABC transporter signature motif; other site 177437013640 Walker B; other site 177437013641 D-loop; other site 177437013642 H-loop/switch region; other site 177437013643 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 177437013644 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177437013645 FtsX-like permease family; Region: FtsX; pfam02687 177437013646 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 177437013647 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177437013648 FtsX-like permease family; Region: FtsX; pfam02687 177437013649 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 177437013650 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177437013651 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 177437013652 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 177437013653 Protein of unknown function (DUF523); Region: DUF523; pfam04463 177437013654 Uncharacterized conserved protein [Function unknown]; Region: COG3272 177437013655 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 177437013656 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 177437013657 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 177437013658 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 177437013659 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 177437013660 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 177437013661 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 177437013662 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 177437013663 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 177437013664 active site 177437013665 Amidase; Region: Amidase; cl11426 177437013666 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 177437013667 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 177437013668 Outer membrane efflux protein; Region: OEP; pfam02321 177437013669 Outer membrane efflux protein; Region: OEP; pfam02321 177437013670 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177437013671 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437013672 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 177437013673 MarR family; Region: MarR_2; pfam12802 177437013674 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 177437013675 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 177437013676 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 177437013677 hypothetical protein; Validated; Region: PRK09039 177437013678 Transcriptional activator TraM; Region: Activator-TraM; cl11943 177437013679 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437013680 ligand binding site [chemical binding]; other site 177437013681 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 177437013682 glutamate formiminotransferase; Region: FtcD; TIGR02024 177437013683 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 177437013684 Formiminotransferase domain; Region: FTCD; pfam02971 177437013685 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 177437013686 imidazolonepropionase; Validated; Region: PRK09356 177437013687 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 177437013688 active site 177437013689 Uncharacterized conserved protein [Function unknown]; Region: COG1739 177437013690 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 177437013691 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 177437013692 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 177437013693 metal-binding site [ion binding] 177437013694 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 177437013695 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 177437013696 metal-binding site [ion binding] 177437013697 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 177437013698 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 177437013699 motif II; other site 177437013700 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437013701 Response regulator receiver domain; Region: Response_reg; pfam00072 177437013702 active site 177437013703 phosphorylation site [posttranslational modification] 177437013704 intermolecular recognition site; other site 177437013705 dimerization interface [polypeptide binding]; other site 177437013706 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 177437013707 PAS fold; Region: PAS_3; pfam08447 177437013708 putative active site [active] 177437013709 heme pocket [chemical binding]; other site 177437013710 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437013711 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437013712 metal binding site [ion binding]; metal-binding site 177437013713 active site 177437013714 I-site; other site 177437013715 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 177437013716 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 177437013717 dimerization interface [polypeptide binding]; other site 177437013718 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 177437013719 dimer interface [polypeptide binding]; other site 177437013720 phosphorylation site [posttranslational modification] 177437013721 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 177437013722 ATP binding site [chemical binding]; other site 177437013723 Mg2+ binding site [ion binding]; other site 177437013724 G-X-G motif; other site 177437013725 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437013726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437013727 active site 177437013728 phosphorylation site [posttranslational modification] 177437013729 intermolecular recognition site; other site 177437013730 dimerization interface [polypeptide binding]; other site 177437013731 Response regulator receiver domain; Region: Response_reg; pfam00072 177437013732 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437013733 active site 177437013734 phosphorylation site [posttranslational modification] 177437013735 intermolecular recognition site; other site 177437013736 dimerization interface [polypeptide binding]; other site 177437013737 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 177437013738 putative binding surface; other site 177437013739 active site 177437013740 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 177437013741 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 177437013742 Transposase; Region: DEDD_Tnp_IS110; pfam01548 177437013743 potential frameshift: common BLAST hit: gi|78222878|ref|YP_384625.1| TonB-dependent receptor, plug 177437013744 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 177437013745 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 177437013746 AAA domain; Region: AAA_27; pfam13514 177437013747 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 177437013748 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 177437013749 active site 177437013750 metal binding site [ion binding]; metal-binding site 177437013751 DNA binding site [nucleotide binding] 177437013752 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 177437013753 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 177437013754 substrate binding site [chemical binding]; other site 177437013755 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 177437013756 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437013757 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 177437013758 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 177437013759 4Fe-4S binding domain; Region: Fer4; pfam00037 177437013760 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 177437013761 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 177437013762 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 177437013763 Domain of unknown function DUF302; Region: DUF302; pfam03625 177437013764 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 177437013765 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437013766 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437013767 4Fe-4S binding domain; Region: Fer4; cl02805 177437013768 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 177437013769 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 177437013770 Carbon monoxide dehydrogenase (CODH) is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA, respectively. CODH has two types of metal clusters, a cubane [Fe4-S4] center (B-cluster) similar to...; Region: CODH; cd01915 177437013771 ACS interaction site; other site 177437013772 CODH interaction site; other site 177437013773 cubane metal cluster (B-cluster) [ion binding]; other site 177437013774 Ni-Fe-S cluster (C-cluster) [ion binding]; other site 177437013775 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 177437013776 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 177437013777 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 177437013778 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 177437013779 transmembrane helices; other site 177437013780 TrkA-C domain; Region: TrkA_C; pfam02080 177437013781 TrkA-C domain; Region: TrkA_C; pfam02080 177437013782 TrkA-C domain; Region: TrkA_C; pfam02080 177437013783 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177437013784 TrkA-C domain; Region: TrkA_C; pfam02080 177437013785 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 177437013786 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 177437013787 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 177437013788 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 177437013789 substrate binding site [chemical binding]; other site 177437013790 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 177437013791 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 177437013792 substrate binding site [chemical binding]; other site 177437013793 ligand binding site [chemical binding]; other site 177437013794 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 177437013795 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 177437013796 Tetramer interface [polypeptide binding]; other site 177437013797 active site 177437013798 FMN-binding site [chemical binding]; other site 177437013799 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 177437013800 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 177437013801 ATP binding site [chemical binding]; other site 177437013802 Mg2+ binding site [ion binding]; other site 177437013803 G-X-G motif; other site 177437013804 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 177437013805 anti sigma factor interaction site; other site 177437013806 regulatory phosphorylation site [posttranslational modification]; other site 177437013807 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 177437013808 homodimer interface [polypeptide binding]; other site 177437013809 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 177437013810 active site pocket [active] 177437013811 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 177437013812 Sensory domain found in PocR; Region: PocR; pfam10114 177437013813 PAS domain S-box; Region: sensory_box; TIGR00229 177437013814 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 177437013815 putative active site [active] 177437013816 heme pocket [chemical binding]; other site 177437013817 PAS domain S-box; Region: sensory_box; TIGR00229 177437013818 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 177437013819 putative active site [active] 177437013820 heme pocket [chemical binding]; other site 177437013821 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437013822 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 177437013823 dimer interface [polypeptide binding]; other site 177437013824 phosphorylation site [posttranslational modification] 177437013825 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 177437013826 ATP binding site [chemical binding]; other site 177437013827 Mg2+ binding site [ion binding]; other site 177437013828 G-X-G motif; other site 177437013829 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437013830 Response regulator receiver domain; Region: Response_reg; pfam00072 177437013831 active site 177437013832 phosphorylation site [posttranslational modification] 177437013833 intermolecular recognition site; other site 177437013834 dimerization interface [polypeptide binding]; other site 177437013835 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437013836 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437013837 active site 177437013838 phosphorylation site [posttranslational modification] 177437013839 intermolecular recognition site; other site 177437013840 dimerization interface [polypeptide binding]; other site 177437013841 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 177437013842 Response regulator receiver domain; Region: Response_reg; pfam00072 177437013843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437013844 active site 177437013845 phosphorylation site [posttranslational modification] 177437013846 intermolecular recognition site; other site 177437013847 dimerization interface [polypeptide binding]; other site 177437013848 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 177437013849 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 177437013850 Beta-lactamase; Region: Beta-lactamase; pfam00144 177437013851 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 177437013852 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 177437013853 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 177437013854 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 177437013855 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 177437013856 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 177437013857 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 177437013858 dimerization interface [polypeptide binding]; other site 177437013859 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437013860 dimer interface [polypeptide binding]; other site 177437013861 putative CheW interface [polypeptide binding]; other site 177437013862 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437013863 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 177437013864 substrate binding pocket [chemical binding]; other site 177437013865 membrane-bound complex binding site; other site 177437013866 hinge residues; other site 177437013867 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177437013868 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 177437013869 dimer interface [polypeptide binding]; other site 177437013870 conserved gate region; other site 177437013871 putative PBP binding loops; other site 177437013872 ABC-ATPase subunit interface; other site 177437013873 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 177437013874 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 177437013875 dimer interface [polypeptide binding]; other site 177437013876 conserved gate region; other site 177437013877 putative PBP binding loops; other site 177437013878 ABC-ATPase subunit interface; other site 177437013879 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177437013880 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177437013881 Walker A/P-loop; other site 177437013882 ATP binding site [chemical binding]; other site 177437013883 Q-loop/lid; other site 177437013884 ABC transporter signature motif; other site 177437013885 Walker B; other site 177437013886 D-loop; other site 177437013887 H-loop/switch region; other site 177437013888 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 177437013889 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 177437013890 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 177437013891 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 177437013892 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 177437013893 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 177437013894 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 177437013895 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 177437013896 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 177437013897 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 177437013898 active site 1 [active] 177437013899 dimer interface [polypeptide binding]; other site 177437013900 hexamer interface [polypeptide binding]; other site 177437013901 active site 2 [active] 177437013902 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 177437013903 Soluble P-type ATPase [General function prediction only]; Region: COG4087 177437013904 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 177437013905 Transposase; Region: DEDD_Tnp_IS110; pfam01548 177437013906 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 177437013907 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 177437013908 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 177437013909 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 177437013910 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 177437013911 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 177437013912 Repair protein; Region: Repair_PSII; cl01535 177437013913 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 177437013914 Repair protein; Region: Repair_PSII; pfam04536 177437013915 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 177437013916 Ferredoxin [Energy production and conversion]; Region: COG1146 177437013917 4Fe-4S binding domain; Region: Fer4; pfam00037 177437013918 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 177437013919 dimerization interface [polypeptide binding]; other site 177437013920 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 177437013921 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437013922 dimer interface [polypeptide binding]; other site 177437013923 putative CheW interface [polypeptide binding]; other site 177437013924 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 177437013925 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 177437013926 Isochorismatase family; Region: Isochorismatase; pfam00857 177437013927 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 177437013928 catalytic triad [active] 177437013929 dimer interface [polypeptide binding]; other site 177437013930 conserved cis-peptide bond; other site 177437013931 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 177437013932 putative catalytic site [active] 177437013933 putative metal binding site [ion binding]; other site 177437013934 putative phosphate binding site [ion binding]; other site 177437013935 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 177437013936 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 177437013937 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 177437013938 Ligand Binding Site [chemical binding]; other site 177437013939 Putative transposase; Region: Y2_Tnp; pfam04986 177437013940 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 177437013941 S-adenosylmethionine binding site [chemical binding]; other site 177437013942 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 177437013943 Domain of unknown function (DUF364); Region: DUF364; pfam04016 177437013944 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 177437013945 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 177437013946 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 177437013947 TrkA-N domain; Region: TrkA_N; pfam02254 177437013948 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 177437013949 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 177437013950 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 177437013951 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 177437013952 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 177437013953 PemK-like protein; Region: PemK; pfam02452 177437013954 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 177437013955 sequence-specific DNA binding site [nucleotide binding]; other site 177437013956 salt bridge; other site 177437013957 glutamate formiminotransferase; Region: FtcD; TIGR02024 177437013958 Formiminotransferase domain, N-terminal subdomain; Region: FTCD_N; pfam07837 177437013959 Formiminotransferase domain; Region: FTCD; pfam02971 177437013960 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 177437013961 urocanate hydratase; Provisional; Region: PRK05414 177437013962 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 177437013963 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 177437013964 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 177437013965 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 177437013966 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 177437013967 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437013968 DNA-binding site [nucleotide binding]; DNA binding site 177437013969 UTRA domain; Region: UTRA; pfam07702 177437013970 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 177437013971 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 177437013972 active sites [active] 177437013973 tetramer interface [polypeptide binding]; other site 177437013974 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 177437013975 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 177437013976 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 177437013977 dimer interface [polypeptide binding]; other site 177437013978 conserved gate region; other site 177437013979 putative PBP binding loops; other site 177437013980 ABC-ATPase subunit interface; other site 177437013981 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 177437013982 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177437013983 Walker A/P-loop; other site 177437013984 ATP binding site [chemical binding]; other site 177437013985 Q-loop/lid; other site 177437013986 ABC transporter signature motif; other site 177437013987 Walker B; other site 177437013988 D-loop; other site 177437013989 H-loop/switch region; other site 177437013990 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 177437013991 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177437013992 Walker A/P-loop; other site 177437013993 ATP binding site [chemical binding]; other site 177437013994 Q-loop/lid; other site 177437013995 ABC transporter signature motif; other site 177437013996 Walker B; other site 177437013997 D-loop; other site 177437013998 H-loop/switch region; other site 177437013999 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 177437014000 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 177437014001 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 177437014002 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 177437014003 putative PBP binding loops; other site 177437014004 dimer interface [polypeptide binding]; other site 177437014005 ABC-ATPase subunit interface; other site 177437014006 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_17; cd08503 177437014007 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 177437014008 Transcriptional regulators [Transcription]; Region: GntR; COG1802 177437014009 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437014010 DNA-binding site [nucleotide binding]; DNA binding site 177437014011 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 177437014012 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 177437014013 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 177437014014 potential frameshift: common BLAST hit: gi|115523095|ref|YP_780006.1| carboxylesterase, type B 177437014015 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 177437014016 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 177437014017 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 177437014018 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 177437014019 motif II; other site 177437014020 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 177437014021 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 177437014022 Transposase [DNA replication, recombination, and repair]; Region: COG5421 177437014023 Integrase core domain; Region: rve; pfam00665 177437014024 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437014025 Integrase core domain; Region: rve; pfam00665 177437014026 AAA domain; Region: AAA_22; pfam13401 177437014027 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 177437014028 Integrase core domain; Region: rve; pfam00665 177437014029 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 177437014030 Walker A motif; other site 177437014031 ATP binding site [chemical binding]; other site 177437014032 Walker B motif; other site 177437014033 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 177437014034 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 177437014035 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 177437014036 HTH-like domain; Region: HTH_21; pfam13276 177437014037 Integrase core domain; Region: rve; pfam00665 177437014038 DDE domain; Region: DDE_Tnp_IS240; pfam13610 177437014039 Integrase core domain; Region: rve_3; pfam13683 177437014040 Transposase; Region: HTH_Tnp_1; cl17663 177437014041 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 177437014042 putative active site [active] 177437014043 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 177437014044 potential frameshift: common BLAST hit: gi|153000221|ref|YP_001365902.1| phage integrase family protein 177437014045 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 177437014046 active site 177437014047 Int/Topo IB signature motif; other site 177437014048 DNA binding site [nucleotide binding] 177437014049 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 177437014050 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 177437014051 Putative transposase; Region: Y2_Tnp; pfam04986 177437014052 HipA-like N-terminal domain; Region: HipA_N; pfam07805 177437014053 HipA-like C-terminal domain; Region: HipA_C; pfam07804 177437014054 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 177437014055 non-specific DNA binding site [nucleotide binding]; other site 177437014056 salt bridge; other site 177437014057 sequence-specific DNA binding site [nucleotide binding]; other site 177437014058 Integrase core domain; Region: rve; pfam00665 177437014059 Integrase core domain; Region: rve_3; cl15866 177437014060 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 177437014061 ATP-binding site [chemical binding]; other site 177437014062 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 177437014063 PLD-like domain; Region: PLDc_2; pfam13091 177437014064 putative homodimer interface [polypeptide binding]; other site 177437014065 putative active site [active] 177437014066 catalytic site [active] 177437014067 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 177437014068 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 177437014069 putative DNA binding site [nucleotide binding]; other site 177437014070 putative Zn2+ binding site [ion binding]; other site 177437014071 HipA-like N-terminal domain; Region: HipA_N; pfam07805 177437014072 HipA-like C-terminal domain; Region: HipA_C; pfam07804 177437014073 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 177437014074 S-adenosylmethionine binding site [chemical binding]; other site 177437014075 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 177437014076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 177437014077 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 177437014078 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 177437014079 Integrase core domain; Region: rve; pfam00665 177437014080 AAA domain; Region: AAA_22; pfam13401 177437014081 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 177437014082 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 177437014083 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 177437014084 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 177437014085 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 177437014086 Domain of unknown function (DUF4209); Region: DUF4209; pfam13910 177437014087 Restriction endonuclease; Region: Mrr_cat; pfam04471 177437014088 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 177437014089 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 177437014090 putative active site [active] 177437014091 putative metal-binding site [ion binding]; other site 177437014092 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 177437014093 active site 177437014094 Bromodomain associated; Region: Bromo_TP; cl17545 177437014095 potential frameshift: common BLAST hit: gi|58616508|ref|YP_195637.1| transposase 177437014096 Putative transposase; Region: Y2_Tnp; pfam04986 177437014097 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 177437014098 Putative transposase; Region: Y2_Tnp; pfam04986 177437014099 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 177437014100 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 177437014101 active site 177437014102 Int/Topo IB signature motif; other site 177437014103 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 177437014104 ATP binding site [chemical binding]; other site 177437014105 substrate binding site [chemical binding]; other site 177437014106 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 177437014107 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 177437014108 CPxP motif; other site 177437014109 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 177437014110 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 177437014111 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 177437014112 S-adenosylmethionine binding site [chemical binding]; other site 177437014113 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 177437014114 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437014115 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 177437014116 Coenzyme A binding pocket [chemical binding]; other site 177437014117 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 177437014118 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 177437014119 Coenzyme A binding pocket [chemical binding]; other site 177437014120 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 177437014121 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 177437014122 active site 177437014123 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 177437014124 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 177437014125 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 177437014126 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437014127 active site 177437014128 phosphorylation site [posttranslational modification] 177437014129 intermolecular recognition site; other site 177437014130 dimerization interface [polypeptide binding]; other site 177437014131 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437014132 Zn2+ binding site [ion binding]; other site 177437014133 Mg2+ binding site [ion binding]; other site 177437014134 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 177437014135 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 177437014136 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 177437014137 Na2 binding site [ion binding]; other site 177437014138 putative substrate binding site 1 [chemical binding]; other site 177437014139 Na binding site 1 [ion binding]; other site 177437014140 putative substrate binding site 2 [chemical binding]; other site 177437014141 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 177437014142 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 177437014143 CoA binding domain; Region: CoA_binding_2; pfam13380 177437014144 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 177437014145 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177437014146 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 177437014147 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 177437014148 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 177437014149 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 177437014150 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 177437014151 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 177437014152 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 177437014153 heme-binding residues [chemical binding]; other site 177437014154 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437014155 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 177437014156 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 177437014157 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 177437014158 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 177437014159 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 177437014160 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437014161 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 177437014162 EAL domain; Region: EAL; pfam00563 177437014163 Cupin domain; Region: Cupin_2; pfam07883 177437014164 4Fe-4S binding domain; Region: Fer4; pfam00037 177437014165 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437014166 4Fe-4S binding domain; Region: Fer4; pfam00037 177437014167 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 177437014168 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 177437014169 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 177437014170 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 177437014171 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 177437014172 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 177437014173 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 177437014174 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 177437014175 N-terminal plug; other site 177437014176 ligand-binding site [chemical binding]; other site 177437014177 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 177437014178 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 177437014179 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 177437014180 N-terminal plug; other site 177437014181 ligand-binding site [chemical binding]; other site 177437014182 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 177437014183 dimerization interface [polypeptide binding]; other site 177437014184 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437014185 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 177437014186 dimer interface [polypeptide binding]; other site 177437014187 phosphorylation site [posttranslational modification] 177437014188 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 177437014189 ATP binding site [chemical binding]; other site 177437014190 Mg2+ binding site [ion binding]; other site 177437014191 G-X-G motif; other site 177437014192 Response regulator receiver domain; Region: Response_reg; pfam00072 177437014193 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437014194 active site 177437014195 phosphorylation site [posttranslational modification] 177437014196 intermolecular recognition site; other site 177437014197 dimerization interface [polypeptide binding]; other site 177437014198 Response regulator receiver domain; Region: Response_reg; pfam00072 177437014199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437014200 active site 177437014201 phosphorylation site [posttranslational modification] 177437014202 intermolecular recognition site; other site 177437014203 dimerization interface [polypeptide binding]; other site 177437014204 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 177437014205 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 177437014206 Sodium Bile acid symporter family; Region: SBF; cl17470 177437014207 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 177437014208 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 177437014209 Low molecular weight phosphatase family; Region: LMWPc; cd00115 177437014210 active site 177437014211 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 177437014212 dimerization interface [polypeptide binding]; other site 177437014213 putative DNA binding site [nucleotide binding]; other site 177437014214 putative Zn2+ binding site [ion binding]; other site 177437014215 trehalose-6-phosphate synthase; Provisional; Region: PRK10117 177437014216 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437014217 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437014218 metal binding site [ion binding]; metal-binding site 177437014219 active site 177437014220 I-site; other site 177437014221 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 177437014222 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 177437014223 NAD binding site [chemical binding]; other site 177437014224 homodimer interface [polypeptide binding]; other site 177437014225 homotetramer interface [polypeptide binding]; other site 177437014226 active site 177437014227 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437014228 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437014229 active site 177437014230 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 177437014231 DUF35 OB-fold domain; Region: DUF35; pfam01796 177437014232 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 177437014233 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 177437014234 active site 177437014235 potential frameshift: common BLAST hit: gi|11497878|ref|NP_069100.1| medium-chain acyl-CoA ligase (alkK-2) 177437014236 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437014237 active site 177437014238 CoA binding site [chemical binding]; other site 177437014239 AMP binding site [chemical binding]; other site 177437014240 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437014241 acyl-activating enzyme (AAE) consensus motif; other site 177437014242 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177437014243 acyl-activating enzyme (AAE) consensus motif; other site 177437014244 FOG: CBS domain [General function prediction only]; Region: COG0517 177437014245 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 177437014246 PAS domain; Region: PAS; smart00091 177437014247 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 177437014248 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 177437014249 putative active site [active] 177437014250 heme pocket [chemical binding]; other site 177437014251 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 177437014252 Walker A motif; other site 177437014253 ATP binding site [chemical binding]; other site 177437014254 Walker B motif; other site 177437014255 arginine finger; other site 177437014256 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437014257 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 177437014258 hypothetical protein; Validated; Region: PRK00029 177437014259 Uncharacterized conserved protein [Function unknown]; Region: COG0397 177437014260 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 177437014261 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437014262 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 177437014263 dimerization interface [polypeptide binding]; other site 177437014264 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 177437014265 dimer interface [polypeptide binding]; other site 177437014266 phosphorylation site [posttranslational modification] 177437014267 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 177437014268 ATP binding site [chemical binding]; other site 177437014269 Mg2+ binding site [ion binding]; other site 177437014270 G-X-G motif; other site 177437014271 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 177437014272 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437014273 active site 177437014274 phosphorylation site [posttranslational modification] 177437014275 intermolecular recognition site; other site 177437014276 dimerization interface [polypeptide binding]; other site 177437014277 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 177437014278 DNA binding site [nucleotide binding] 177437014279 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 177437014280 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 177437014281 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 177437014282 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 177437014283 Right handed beta helix region; Region: Beta_helix; pfam13229 177437014284 Right handed beta helix region; Region: Beta_helix; pfam13229 177437014285 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 177437014286 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 177437014287 ATP binding site [chemical binding]; other site 177437014288 putative Mg++ binding site [ion binding]; other site 177437014289 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 177437014290 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 177437014291 nucleotide binding region [chemical binding]; other site 177437014292 ATP-binding site [chemical binding]; other site 177437014293 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 177437014294 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 177437014295 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 177437014296 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 177437014297 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 177437014298 dimer interface [polypeptide binding]; other site 177437014299 conserved gate region; other site 177437014300 putative PBP binding loops; other site 177437014301 ABC-ATPase subunit interface; other site 177437014302 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 177437014303 dimer interface [polypeptide binding]; other site 177437014304 conserved gate region; other site 177437014305 putative PBP binding loops; other site 177437014306 ABC-ATPase subunit interface; other site 177437014307 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 177437014308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437014309 Walker A/P-loop; other site 177437014310 ATP binding site [chemical binding]; other site 177437014311 Q-loop/lid; other site 177437014312 ABC transporter signature motif; other site 177437014313 Walker B; other site 177437014314 D-loop; other site 177437014315 H-loop/switch region; other site 177437014316 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 177437014317 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 177437014318 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 177437014319 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 177437014320 peptide binding site [polypeptide binding]; other site 177437014321 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 177437014322 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 177437014323 dimer interface [polypeptide binding]; other site 177437014324 conserved gate region; other site 177437014325 putative PBP binding loops; other site 177437014326 ABC-ATPase subunit interface; other site 177437014327 dipeptide transporter; Provisional; Region: PRK10913 177437014328 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 177437014329 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 177437014330 dimer interface [polypeptide binding]; other site 177437014331 conserved gate region; other site 177437014332 putative PBP binding loops; other site 177437014333 ABC-ATPase subunit interface; other site 177437014334 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 177437014335 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177437014336 Walker A/P-loop; other site 177437014337 ATP binding site [chemical binding]; other site 177437014338 Q-loop/lid; other site 177437014339 ABC transporter signature motif; other site 177437014340 Walker B; other site 177437014341 D-loop; other site 177437014342 H-loop/switch region; other site 177437014343 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 177437014344 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 177437014345 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177437014346 Walker A/P-loop; other site 177437014347 ATP binding site [chemical binding]; other site 177437014348 Q-loop/lid; other site 177437014349 ABC transporter signature motif; other site 177437014350 Walker B; other site 177437014351 D-loop; other site 177437014352 H-loop/switch region; other site 177437014353 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 177437014354 CoA binding domain; Region: CoA_binding_2; pfam13380 177437014355 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 177437014356 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 177437014357 active site 177437014358 catalytic triad [active] 177437014359 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 177437014360 S-adenosylmethionine binding site [chemical binding]; other site 177437014361 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 177437014362 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 177437014363 histidinol dehydrogenase; Region: hisD; TIGR00069 177437014364 NAD binding site [chemical binding]; other site 177437014365 dimerization interface [polypeptide binding]; other site 177437014366 product binding site; other site 177437014367 substrate binding site [chemical binding]; other site 177437014368 zinc binding site [ion binding]; other site 177437014369 catalytic residues [active] 177437014370 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 177437014371 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 177437014372 putative metal binding residues [ion binding]; other site 177437014373 DctM-like transporters; Region: DctM; pfam06808 177437014374 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177437014375 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 177437014376 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437014377 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177437014378 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 177437014379 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 177437014380 Nitrogen regulatory protein P-II; Region: P-II; smart00938 177437014381 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 177437014382 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177437014383 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177437014384 ABC transporter; Region: ABC_tran_2; pfam12848 177437014385 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177437014386 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 177437014387 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 177437014388 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 177437014389 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 177437014390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177437014391 homodimer interface [polypeptide binding]; other site 177437014392 catalytic residue [active] 177437014393 cobalamin synthase; Reviewed; Region: cobS; PRK00235 177437014394 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 177437014395 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 177437014396 FeS/SAM binding site; other site 177437014397 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 177437014398 putative DNA binding site [nucleotide binding]; other site 177437014399 putative Zn2+ binding site [ion binding]; other site 177437014400 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437014401 ligand binding site [chemical binding]; other site 177437014402 LPP20 lipoprotein; Region: LPP20; pfam02169 177437014403 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437014404 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177437014405 ligand binding site [chemical binding]; other site 177437014406 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 177437014407 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 177437014408 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 177437014409 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 177437014410 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 177437014411 putative active site [active] 177437014412 putative metal binding residues [ion binding]; other site 177437014413 signature motif; other site 177437014414 putative dimer interface [polypeptide binding]; other site 177437014415 putative phosphate binding site [ion binding]; other site 177437014416 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 177437014417 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 177437014418 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 177437014419 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 177437014420 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 177437014421 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 177437014422 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 177437014423 active site 177437014424 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 177437014425 active site 177437014426 N-terminal domain interface [polypeptide binding]; other site 177437014427 Aspartokinases [Amino acid transport and metabolism]; Region: LysC; COG0527 177437014428 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 177437014429 nucleotide binding site [chemical binding]; other site 177437014430 substrate binding site [chemical binding]; other site 177437014431 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 177437014432 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 177437014433 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 177437014434 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 177437014435 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437014436 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437014437 active site 177437014438 phosphorylation site [posttranslational modification] 177437014439 intermolecular recognition site; other site 177437014440 dimerization interface [polypeptide binding]; other site 177437014441 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 177437014442 Walker A motif; other site 177437014443 ATP binding site [chemical binding]; other site 177437014444 Walker B motif; other site 177437014445 arginine finger; other site 177437014446 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437014447 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 177437014448 dimerization interface [polypeptide binding]; other site 177437014449 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 177437014450 phosphorylation site [posttranslational modification] 177437014451 dimer interface [polypeptide binding]; other site 177437014452 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 177437014453 ATP binding site [chemical binding]; other site 177437014454 Mg2+ binding site [ion binding]; other site 177437014455 G-X-G motif; other site 177437014456 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437014457 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 177437014458 substrate binding pocket [chemical binding]; other site 177437014459 membrane-bound complex binding site; other site 177437014460 hinge residues; other site 177437014461 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 177437014462 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 177437014463 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 177437014464 FeS/SAM binding site; other site 177437014465 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 177437014466 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 177437014467 Ligand Binding Site [chemical binding]; other site 177437014468 NIL domain; Region: NIL; pfam09383 177437014469 4Fe-4S binding domain; Region: Fer4; cl02805 177437014470 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177437014471 Transglycosylase; Region: Transgly; pfam00912 177437014472 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 177437014473 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 177437014474 Sporulation related domain; Region: SPOR; pfam05036 177437014475 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 177437014476 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 177437014477 CPxP motif; other site 177437014478 DsrE/DsrF-like family; Region: DrsE; pfam02635 177437014479 Methyltransferase domain; Region: Methyltransf_31; pfam13847 177437014480 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 177437014481 S-adenosylmethionine binding site [chemical binding]; other site 177437014482 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 177437014483 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 177437014484 FeS/SAM binding site; other site 177437014485 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 177437014486 UbiA prenyltransferase family; Region: UbiA; pfam01040 177437014487 aromatic acid decarboxylase; Validated; Region: PRK05920 177437014488 Flavoprotein; Region: Flavoprotein; pfam02441 177437014489 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 177437014490 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 177437014491 active site 177437014492 NTP binding site [chemical binding]; other site 177437014493 metal binding triad [ion binding]; metal-binding site 177437014494 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 177437014495 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437014496 Zn2+ binding site [ion binding]; other site 177437014497 Mg2+ binding site [ion binding]; other site 177437014498 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 177437014499 BCCT family transporter; Region: BCCT; pfam02028 177437014500 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 177437014501 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 177437014502 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 177437014503 substrate binding pocket [chemical binding]; other site 177437014504 membrane-bound complex binding site; other site 177437014505 hinge residues; other site 177437014506 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 177437014507 GAF domain; Region: GAF; cl17456 177437014508 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437014509 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 177437014510 dimer interface [polypeptide binding]; other site 177437014511 phosphorylation site [posttranslational modification] 177437014512 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 177437014513 ATP binding site [chemical binding]; other site 177437014514 Mg2+ binding site [ion binding]; other site 177437014515 G-X-G motif; other site 177437014516 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437014517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437014518 active site 177437014519 phosphorylation site [posttranslational modification] 177437014520 intermolecular recognition site; other site 177437014521 dimerization interface [polypeptide binding]; other site 177437014522 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 177437014523 Walker A motif; other site 177437014524 ATP binding site [chemical binding]; other site 177437014525 Walker B motif; other site 177437014526 arginine finger; other site 177437014527 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 177437014528 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 177437014529 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 177437014530 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 177437014531 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 177437014532 B12 binding site [chemical binding]; other site 177437014533 cobalt ligand [ion binding]; other site 177437014534 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 177437014535 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 177437014536 substrate binding pocket [chemical binding]; other site 177437014537 dimer interface [polypeptide binding]; other site 177437014538 inhibitor binding site; inhibition site 177437014539 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177437014540 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 177437014541 Y-family of DNA polymerases; Region: PolY; cl12025 177437014542 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177437014543 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437014544 ligand binding site [chemical binding]; other site 177437014545 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 177437014546 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 177437014547 ABC-2 type transporter; Region: ABC2_membrane; cl17235 177437014548 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 177437014549 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 177437014550 hexamer interface [polypeptide binding]; other site 177437014551 ligand binding site [chemical binding]; other site 177437014552 putative active site [active] 177437014553 NAD(P) binding site [chemical binding]; other site 177437014554 nodulation ABC transporter NodI; Provisional; Region: PRK13537 177437014555 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 177437014556 Walker A/P-loop; other site 177437014557 ATP binding site [chemical binding]; other site 177437014558 Q-loop/lid; other site 177437014559 ABC transporter signature motif; other site 177437014560 Walker B; other site 177437014561 D-loop; other site 177437014562 H-loop/switch region; other site 177437014563 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 177437014564 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 177437014565 active site 177437014566 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 177437014567 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 177437014568 catalytic core [active] 177437014569 FmdE, Molybdenum formylmethanofuran dehydrogenase operon; Region: FmdE; pfam02663 177437014570 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 177437014571 NlpC/P60 family; Region: NLPC_P60; pfam00877 177437014572 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 177437014573 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 177437014574 CoA binding domain; Region: CoA_binding_2; pfam13380 177437014575 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 177437014576 methanogenesis imperfect marker protein 11; Region: methan_mark_11; TIGR03280 177437014577 Transcriptional regulator PadR-like family; Region: PadR; cl17335 177437014578 Predicted transcriptional regulators [Transcription]; Region: COG1695 177437014579 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 177437014580 nucleotide binding site [chemical binding]; other site 177437014581 substrate binding site [chemical binding]; other site 177437014582 Yqey-like protein; Region: YqeY; cl17540 177437014583 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 177437014584 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 177437014585 minor groove reading motif; other site 177437014586 helix-hairpin-helix signature motif; other site 177437014587 substrate binding pocket [chemical binding]; other site 177437014588 active site 177437014589 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 177437014590 cytosine deaminase; Validated; Region: PRK07572 177437014591 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 177437014592 active site 177437014593 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437014594 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 177437014595 TM-ABC transporter signature motif; other site 177437014596 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437014597 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 177437014598 TM-ABC transporter signature motif; other site 177437014599 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 177437014600 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 177437014601 Walker A/P-loop; other site 177437014602 ATP binding site [chemical binding]; other site 177437014603 Q-loop/lid; other site 177437014604 ABC transporter signature motif; other site 177437014605 Walker B; other site 177437014606 D-loop; other site 177437014607 H-loop/switch region; other site 177437014608 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 177437014609 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 177437014610 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 177437014611 putative ligand binding site [chemical binding]; other site 177437014612 conserved hypothetical protein; Region: TIGR03833 177437014613 YaeQ protein; Region: YaeQ; pfam07152 177437014614 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177437014615 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 177437014616 DNA binding residues [nucleotide binding] 177437014617 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437014618 Integrase core domain; Region: rve; pfam00665 177437014619 AAA domain; Region: AAA_22; pfam13401 177437014620 SlyX; Region: SlyX; pfam04102 177437014621 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 177437014622 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 177437014623 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 177437014624 Walker A/P-loop; other site 177437014625 ATP binding site [chemical binding]; other site 177437014626 Q-loop/lid; other site 177437014627 ABC transporter signature motif; other site 177437014628 Walker B; other site 177437014629 D-loop; other site 177437014630 H-loop/switch region; other site 177437014631 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 177437014632 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 177437014633 dimer interface [polypeptide binding]; other site 177437014634 conserved gate region; other site 177437014635 putative PBP binding loops; other site 177437014636 ABC-ATPase subunit interface; other site 177437014637 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 177437014638 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 177437014639 conserved gate region; other site 177437014640 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 177437014641 dimer interface [polypeptide binding]; other site 177437014642 conserved gate region; other site 177437014643 putative PBP binding loops; other site 177437014644 ABC-ATPase subunit interface; other site 177437014645 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 177437014646 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 177437014647 substrate binding pocket [chemical binding]; other site 177437014648 membrane-bound complex binding site; other site 177437014649 hinge residues; other site 177437014650 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 177437014651 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 177437014652 DXD motif; other site 177437014653 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 177437014654 CHASE2 domain; Region: CHASE2; pfam05226 177437014655 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437014656 Zn2+ binding site [ion binding]; other site 177437014657 Mg2+ binding site [ion binding]; other site 177437014658 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177437014659 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177437014660 ligand binding site [chemical binding]; other site 177437014661 FecR protein; Region: FecR; pfam04773 177437014662 YcaO-like family; Region: YcaO; pfam02624 177437014663 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 177437014664 Tetratricopeptide repeat; Region: TPR_16; pfam13432 177437014665 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 177437014666 binding surface 177437014667 TPR motif; other site 177437014668 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 177437014669 TPR repeat; Region: TPR_11; pfam13414 177437014670 Methyltransferase domain; Region: Methyltransf_23; pfam13489 177437014671 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 177437014672 S-adenosylmethionine binding site [chemical binding]; other site 177437014673 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 177437014674 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 177437014675 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 177437014676 putative active site [active] 177437014677 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 177437014678 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 177437014679 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 177437014680 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 177437014681 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 177437014682 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 177437014683 Ligand Binding Site [chemical binding]; other site 177437014684 Transposase; Region: DEDD_Tnp_IS110; pfam01548 177437014685 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 177437014686 hypothetical protein; Provisional; Region: PRK14851 177437014687 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 177437014688 ATP binding site [chemical binding]; other site 177437014689 substrate interface [chemical binding]; other site 177437014690 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 177437014691 dimer interface [polypeptide binding]; other site 177437014692 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 177437014693 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437014694 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 177437014695 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177437014696 DctM-like transporters; Region: DctM; pfam06808 177437014697 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 177437014698 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 177437014699 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 177437014700 minor groove reading motif; other site 177437014701 helix-hairpin-helix signature motif; other site 177437014702 substrate binding pocket [chemical binding]; other site 177437014703 active site 177437014704 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 177437014705 active site 177437014706 8-oxo-dGMP binding site [chemical binding]; other site 177437014707 nudix motif; other site 177437014708 metal binding site [ion binding]; metal-binding site 177437014709 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 177437014710 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 177437014711 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 177437014712 active site 177437014713 dimer interface [polypeptide binding]; other site 177437014714 effector binding site; other site 177437014715 TSCPD domain; Region: TSCPD; pfam12637 177437014716 HDOD domain; Region: HDOD; pfam08668 177437014717 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 177437014718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437014719 active site 177437014720 phosphorylation site [posttranslational modification] 177437014721 intermolecular recognition site; other site 177437014722 dimerization interface [polypeptide binding]; other site 177437014723 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 177437014724 binding surface 177437014725 TPR motif; other site 177437014726 TPR repeat; Region: TPR_11; pfam13414 177437014727 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 177437014728 binding surface 177437014729 TPR motif; other site 177437014730 TPR repeat; Region: TPR_11; pfam13414 177437014731 Putative Fe-S cluster; Region: FeS; cl17515 177437014732 Domain of unknown function (DUF3786); Region: DUF3786; pfam12654 177437014733 YCII-related domain; Region: YCII; cl00999 177437014734 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 177437014735 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 177437014736 Walker A/P-loop; other site 177437014737 ATP binding site [chemical binding]; other site 177437014738 Q-loop/lid; other site 177437014739 ABC transporter signature motif; other site 177437014740 Walker B; other site 177437014741 D-loop; other site 177437014742 H-loop/switch region; other site 177437014743 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 177437014744 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 177437014745 TM-ABC transporter signature motif; other site 177437014746 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437014747 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 177437014748 TM-ABC transporter signature motif; other site 177437014749 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 177437014750 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 177437014751 putative ligand binding site [chemical binding]; other site 177437014752 HI0933-like protein; Region: HI0933_like; pfam03486 177437014753 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437014754 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 177437014755 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 177437014756 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 177437014757 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 177437014758 lipoyl attachment site [posttranslational modification]; other site 177437014759 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 177437014760 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177437014761 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 177437014762 active site residue [active] 177437014763 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 177437014764 diiron binding motif [ion binding]; other site 177437014765 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cd11375 177437014766 active site 177437014767 Zn binding site [ion binding]; other site 177437014768 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 177437014769 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437014770 active site 177437014771 phosphorylation site [posttranslational modification] 177437014772 intermolecular recognition site; other site 177437014773 dimerization interface [polypeptide binding]; other site 177437014774 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 177437014775 Walker A motif; other site 177437014776 ATP binding site [chemical binding]; other site 177437014777 Walker B motif; other site 177437014778 arginine finger; other site 177437014779 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437014780 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 177437014781 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 177437014782 PAS domain; Region: PAS_9; pfam13426 177437014783 putative active site [active] 177437014784 heme pocket [chemical binding]; other site 177437014785 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 177437014786 dimer interface [polypeptide binding]; other site 177437014787 phosphorylation site [posttranslational modification] 177437014788 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 177437014789 ATP binding site [chemical binding]; other site 177437014790 G-X-G motif; other site 177437014791 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 177437014792 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 177437014793 catalytic loop [active] 177437014794 iron binding site [ion binding]; other site 177437014795 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 177437014796 PAS domain; Region: PAS_9; pfam13426 177437014797 putative active site [active] 177437014798 heme pocket [chemical binding]; other site 177437014799 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 177437014800 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 177437014801 Walker A motif; other site 177437014802 ATP binding site [chemical binding]; other site 177437014803 Walker B motif; other site 177437014804 arginine finger; other site 177437014805 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437014806 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 177437014807 CGGC domain; Region: CGGC; cl02356 177437014808 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 177437014809 Predicted membrane protein [Function unknown]; Region: COG1289 177437014810 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 177437014811 Predicted membrane protein [Function unknown]; Region: COG4129 177437014812 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 177437014813 dimer interface [polypeptide binding]; other site 177437014814 putative CheW interface [polypeptide binding]; other site 177437014815 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177437014816 Cysteine-rich domain; Region: CCG; pfam02754 177437014817 Cysteine-rich domain; Region: CCG; pfam02754 177437014818 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 177437014819 FAD binding domain; Region: FAD_binding_4; pfam01565 177437014820 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 177437014821 Transcriptional regulators [Transcription]; Region: GntR; COG1802 177437014822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 177437014823 DNA-binding site [nucleotide binding]; DNA binding site 177437014824 FCD domain; Region: FCD; pfam07729 177437014825 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 177437014826 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 177437014827 S-adenosylmethionine binding site [chemical binding]; other site 177437014828 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 177437014829 enoyl-CoA hydratase; Validated; Region: PRK08139 177437014830 substrate binding site [chemical binding]; other site 177437014831 oxyanion hole (OAH) forming residues; other site 177437014832 trimer interface [polypeptide binding]; other site 177437014833 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 177437014834 proline aminopeptidase P II; Provisional; Region: PRK10879 177437014835 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 177437014836 active site 177437014837 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 177437014838 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 177437014839 ATP binding site [chemical binding]; other site 177437014840 putative Mg++ binding site [ion binding]; other site 177437014841 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 177437014842 nucleotide binding region [chemical binding]; other site 177437014843 ATP-binding site [chemical binding]; other site 177437014844 Membrane transport protein; Region: Mem_trans; pfam03547 177437014845 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 177437014846 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 177437014847 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 177437014848 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 177437014849 [4Fe-4S] binding site [ion binding]; other site 177437014850 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 177437014851 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 177437014852 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 177437014853 molybdopterin cofactor binding site; other site 177437014854 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 177437014855 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 177437014856 heme-binding residues [chemical binding]; other site 177437014857 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 177437014858 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 177437014859 active site 177437014860 substrate binding site [chemical binding]; other site 177437014861 DEAD-like helicases superfamily; Region: DEXDc; smart00487 177437014862 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 177437014863 ATP binding site [chemical binding]; other site 177437014864 putative Mg++ binding site [ion binding]; other site 177437014865 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 177437014866 nucleotide binding region [chemical binding]; other site 177437014867 ATP-binding site [chemical binding]; other site 177437014868 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 177437014869 Part of AAA domain; Region: AAA_19; pfam13245 177437014870 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 177437014871 Family description; Region: UvrD_C_2; pfam13538 177437014872 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 177437014873 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177437014874 FeS/SAM binding site; other site 177437014875 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 177437014876 CoA binding domain; Region: CoA_binding_2; pfam13380 177437014877 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 177437014878 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 177437014879 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 177437014880 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 177437014881 acetyl-CoA synthetase; Provisional; Region: PRK04319 177437014882 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 177437014883 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 177437014884 active site 177437014885 acyl-activating enzyme (AAE) consensus motif; other site 177437014886 putative CoA binding site [chemical binding]; other site 177437014887 AMP binding site [chemical binding]; other site 177437014888 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 177437014889 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 177437014890 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 177437014891 Walker A motif; other site 177437014892 ATP binding site [chemical binding]; other site 177437014893 Walker B motif; other site 177437014894 HDOD domain; Region: HDOD; pfam08668 177437014895 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437014896 Zn2+ binding site [ion binding]; other site 177437014897 Mg2+ binding site [ion binding]; other site 177437014898 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 177437014899 trimer interface [polypeptide binding]; other site 177437014900 putative Zn binding site [ion binding]; other site 177437014901 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 177437014902 Cobalt transport protein; Region: CbiQ; cl00463 177437014903 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 177437014904 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 177437014905 Walker A/P-loop; other site 177437014906 ATP binding site [chemical binding]; other site 177437014907 Q-loop/lid; other site 177437014908 ABC transporter signature motif; other site 177437014909 Walker B; other site 177437014910 D-loop; other site 177437014911 H-loop/switch region; other site 177437014912 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 177437014913 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 177437014914 Walker A/P-loop; other site 177437014915 ATP binding site [chemical binding]; other site 177437014916 Q-loop/lid; other site 177437014917 ABC transporter signature motif; other site 177437014918 Walker B; other site 177437014919 D-loop; other site 177437014920 H-loop/switch region; other site 177437014921 Methyltransferase domain; Region: Methyltransf_32; pfam13679 177437014922 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 177437014923 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 177437014924 PhnA protein; Region: PhnA; pfam03831 177437014925 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 177437014926 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 177437014927 dimerization interface [polypeptide binding]; other site 177437014928 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 177437014929 putative active site [active] 177437014930 heme pocket [chemical binding]; other site 177437014931 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 177437014932 dimer interface [polypeptide binding]; other site 177437014933 phosphorylation site [posttranslational modification] 177437014934 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 177437014935 ATP binding site [chemical binding]; other site 177437014936 Mg2+ binding site [ion binding]; other site 177437014937 G-X-G motif; other site 177437014938 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 177437014939 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 177437014940 putative metal binding site [ion binding]; other site 177437014941 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 177437014942 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 177437014943 ABC-ATPase subunit interface; other site 177437014944 dimer interface [polypeptide binding]; other site 177437014945 putative PBP binding regions; other site 177437014946 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 177437014947 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 177437014948 Walker A/P-loop; other site 177437014949 ATP binding site [chemical binding]; other site 177437014950 Q-loop/lid; other site 177437014951 ABC transporter signature motif; other site 177437014952 Walker B; other site 177437014953 D-loop; other site 177437014954 H-loop/switch region; other site 177437014955 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 177437014956 homodimer interaction site [polypeptide binding]; other site 177437014957 cofactor binding site; other site 177437014958 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 177437014959 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 177437014960 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 177437014961 NAD-dependent deacetylase; Provisional; Region: PRK00481 177437014962 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 177437014963 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 177437014964 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177437014965 Coenzyme A binding pocket [chemical binding]; other site 177437014966 Predicted amidohydrolase [General function prediction only]; Region: COG0388 177437014967 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 177437014968 putative active site [active] 177437014969 catalytic triad [active] 177437014970 putative dimer interface [polypeptide binding]; other site 177437014971 Ion channel; Region: Ion_trans_2; pfam07885 177437014972 TrkA-N domain; Region: TrkA_N; pfam02254 177437014973 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 177437014974 TrkA-C domain; Region: TrkA_C; pfam02080 177437014975 TrkA-N domain; Region: TrkA_N; pfam02254 177437014976 TrkA-C domain; Region: TrkA_C; pfam02080 177437014977 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 177437014978 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 177437014979 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177437014980 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437014981 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437014982 hypothetical protein; Provisional; Region: PRK09256 177437014983 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 177437014984 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 177437014985 Domain of unknown function DUF20; Region: UPF0118; pfam01594 177437014986 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437014987 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 177437014988 active site 177437014989 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437014990 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 177437014991 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 177437014992 DctM-like transporters; Region: DctM; pfam06808 177437014993 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177437014994 proline racemase; Provisional; Region: PRK13969 177437014995 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 177437014996 Domain of unknown function (DUF3783); Region: DUF3783; pfam12646 177437014997 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 177437014998 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 177437014999 N-terminal plug; other site 177437015000 ligand-binding site [chemical binding]; other site 177437015001 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 177437015002 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 177437015003 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 177437015004 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 177437015005 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 177437015006 ATP-NAD kinase; Region: NAD_kinase; pfam01513 177437015007 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 177437015008 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 177437015009 alpha subunit interface [polypeptide binding]; other site 177437015010 TPP binding site [chemical binding]; other site 177437015011 heterodimer interface [polypeptide binding]; other site 177437015012 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177437015013 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 177437015014 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 177437015015 tetramer interface [polypeptide binding]; other site 177437015016 TPP-binding site [chemical binding]; other site 177437015017 heterodimer interface [polypeptide binding]; other site 177437015018 phosphorylation loop region [posttranslational modification] 177437015019 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 177437015020 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 177437015021 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 177437015022 E3 interaction surface; other site 177437015023 lipoyl attachment site [posttranslational modification]; other site 177437015024 e3 binding domain; Region: E3_binding; pfam02817 177437015025 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 177437015026 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 177437015027 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 177437015028 putative active site [active] 177437015029 heme pocket [chemical binding]; other site 177437015030 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 177437015031 Walker A motif; other site 177437015032 ATP binding site [chemical binding]; other site 177437015033 Walker B motif; other site 177437015034 arginine finger; other site 177437015035 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 177437015036 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 177437015037 classical (c) SDRs; Region: SDR_c; cd05233 177437015038 NAD(P) binding site [chemical binding]; other site 177437015039 active site 177437015040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177437015041 active site 177437015042 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 177437015043 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 177437015044 N- and C-terminal domain interface [polypeptide binding]; other site 177437015045 active site 177437015046 MgATP binding site [chemical binding]; other site 177437015047 catalytic site [active] 177437015048 metal binding site [ion binding]; metal-binding site 177437015049 xylulose binding site [chemical binding]; other site 177437015050 putative homodimer interface [polypeptide binding]; other site 177437015051 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 177437015052 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 177437015053 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 177437015054 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 177437015055 putative NADH binding site [chemical binding]; other site 177437015056 putative active site [active] 177437015057 nudix motif; other site 177437015058 putative metal binding site [ion binding]; other site 177437015059 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_11; cd12175 177437015060 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 177437015061 putative ligand binding site [chemical binding]; other site 177437015062 putative NAD binding site [chemical binding]; other site 177437015063 catalytic site [active] 177437015064 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 177437015065 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177437015066 FeS/SAM binding site; other site 177437015067 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 177437015068 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 177437015069 active site 177437015070 tetramer interface [polypeptide binding]; other site 177437015071 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177437015072 active site 177437015073 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 177437015074 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 177437015075 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 177437015076 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 177437015077 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 177437015078 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177437015079 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 177437015080 IMP binding site; other site 177437015081 dimer interface [polypeptide binding]; other site 177437015082 interdomain contacts; other site 177437015083 partial ornithine binding site; other site 177437015084 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 177437015085 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 177437015086 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 177437015087 catalytic site [active] 177437015088 subunit interface [polypeptide binding]; other site 177437015089 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 177437015090 domain_subunit interface; other site 177437015091 glutamate synthase (NADPH), homotetrameric; Region: gltA; TIGR01316 177437015092 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 177437015093 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 177437015094 4Fe-4S binding domain; Region: Fer4_6; pfam12837 177437015095 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 177437015096 4Fe-4S binding domain; Region: Fer4; pfam00037 177437015097 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 177437015098 phosphate binding site [ion binding]; other site 177437015099 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 177437015100 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 177437015101 active site 177437015102 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 177437015103 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 177437015104 metal binding triad; other site 177437015105 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 177437015106 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 177437015107 metal binding triad; other site 177437015108 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 177437015109 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 177437015110 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 177437015111 acyl-activating enzyme (AAE) consensus motif; other site 177437015112 putative AMP binding site [chemical binding]; other site 177437015113 putative active site [active] 177437015114 putative CoA binding site [chemical binding]; other site 177437015115 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 177437015116 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 177437015117 acyl-activating enzyme (AAE) consensus motif; other site 177437015118 putative AMP binding site [chemical binding]; other site 177437015119 putative active site [active] 177437015120 putative CoA binding site [chemical binding]; other site 177437015121 enoyl-CoA hydratase; Provisional; Region: PRK06210 177437015122 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 177437015123 substrate binding site [chemical binding]; other site 177437015124 oxyanion hole (OAH) forming residues; other site 177437015125 trimer interface [polypeptide binding]; other site 177437015126 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177437015127 Zn2+ binding site [ion binding]; other site 177437015128 Mg2+ binding site [ion binding]; other site 177437015129 peptide chain release factor 2; Provisional; Region: PRK05589 177437015130 PCRF domain; Region: PCRF; pfam03462 177437015131 RF-1 domain; Region: RF-1; pfam00472 177437015132 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 177437015133 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 177437015134 putative active site [active] 177437015135 catalytic triad [active] 177437015136 putative dimer interface [polypeptide binding]; other site 177437015137 FOG: WD40-like repeat [Function unknown]; Region: COG1520 177437015138 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 177437015139 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 177437015140 putative active site [active] 177437015141 heme pocket [chemical binding]; other site 177437015142 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 177437015143 dimer interface [polypeptide binding]; other site 177437015144 phosphorylation site [posttranslational modification] 177437015145 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 177437015146 ATP binding site [chemical binding]; other site 177437015147 Mg2+ binding site [ion binding]; other site 177437015148 G-X-G motif; other site 177437015149 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 177437015150 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 177437015151 putative transporter; Validated; Region: PRK03818 177437015152 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 177437015153 TrkA-C domain; Region: TrkA_C; pfam02080 177437015154 TrkA-C domain; Region: TrkA_C; pfam02080 177437015155 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 177437015156 Helix-turn-helix domain; Region: HTH_17; pfam12728 177437015157 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 177437015158 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 177437015159 AAA domain; Region: AAA_25; pfam13481 177437015160 ATP binding site [chemical binding]; other site 177437015161 Walker B motif; other site 177437015162 Phage terminase, small subunit; Region: Terminase_4; cl01525 177437015163 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 177437015164 Phage capsid family; Region: Phage_capsid; pfam05065 177437015165 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 177437015166 potential protein location (hypothetical protein) that overlaps protein (hypothetical protein) 177437015167 Recombinase; Region: Recombinase; pfam07508 177437015168 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 177437015169 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 177437015170 Int/Topo IB signature motif; other site 177437015171 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 177437015172 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 177437015173 substrate binding pocket [chemical binding]; other site 177437015174 chain length determination region; other site 177437015175 substrate-Mg2+ binding site; other site 177437015176 catalytic residues [active] 177437015177 aspartate-rich region 1; other site 177437015178 active site lid residues [active] 177437015179 aspartate-rich region 2; other site 177437015180 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 177437015181 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 177437015182 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 177437015183 FeS/SAM binding site; other site 177437015184 TRAM domain; Region: TRAM; pfam01938 177437015185 heat shock protein 90; Provisional; Region: PRK05218 177437015186 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 177437015187 ATP binding site [chemical binding]; other site 177437015188 Mg2+ binding site [ion binding]; other site 177437015189 G-X-G motif; other site 177437015190 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 177437015191 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 177437015192 FeS/SAM binding site; other site 177437015193 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 177437015194 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 177437015195 TPP-binding site [chemical binding]; other site 177437015196 dimer interface [polypeptide binding]; other site 177437015197 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 177437015198 PYR/PP interface [polypeptide binding]; other site 177437015199 dimer interface [polypeptide binding]; other site 177437015200 TPP binding site [chemical binding]; other site 177437015201 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177437015202 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 177437015203 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 177437015204 Uncharacterized conserved protein [Function unknown]; Region: COG5316 177437015205 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 177437015206 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 177437015207 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 177437015208 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 177437015209 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 177437015210 DctM-like transporters; Region: DctM; pfam06808 177437015211 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 177437015212 peptide modification radical SAM enzyme, YydG family; Region: rSAM_yydG; TIGR04078 177437015213 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 177437015214 FeS/SAM binding site; other site 177437015215 Predicted permease; Region: DUF318; cl17795 177437015216 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 177437015217 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 177437015218 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 177437015219 putative DNA binding site [nucleotide binding]; other site 177437015220 putative Zn2+ binding site [ion binding]; other site 177437015221 Predicted permeases [General function prediction only]; Region: COG0701 177437015222 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 177437015223 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177437015224 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 177437015225 catalytic residues [active] 177437015226 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 177437015227 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 177437015228 transposase/IS protein; Provisional; Region: PRK09183 177437015229 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 177437015230 Walker A motif; other site 177437015231 ATP binding site [chemical binding]; other site 177437015232 Walker B motif; other site 177437015233 arginine finger; other site 177437015234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 177437015235 Integrase core domain; Region: rve; pfam00665 177437015236 Helix-turn-helix domain; Region: HTH_36; pfam13730 177437015237 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 177437015238 Membrane protein of unknown function; Region: DUF360; pfam04020 177437015239 PA14 domain; Region: PA14; cl08459 177437015240 PEP-CTERM motif; Region: VPEP; pfam07589 177437015241 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 177437015242 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 177437015243 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177437015244 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437015245 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 177437015246 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 177437015247 trimer interface [polypeptide binding]; other site 177437015248 active site 177437015249 substrate binding site [chemical binding]; other site 177437015250 CoA binding site [chemical binding]; other site 177437015251 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 177437015252 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 177437015253 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 177437015254 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 177437015255 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 177437015256 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 177437015257 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 177437015258 substrate binding site [chemical binding]; other site 177437015259 oxyanion hole (OAH) forming residues; other site 177437015260 trimer interface [polypeptide binding]; other site 177437015261 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 177437015262 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 177437015263 dimer interface [polypeptide binding]; other site 177437015264 active site 177437015265 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 177437015266 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 177437015267 Catalytic site; other site 177437015268 Staphylococcal nuclease homologue; Region: SNase; pfam00565 177437015269 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 177437015270 PAS domain S-box; Region: sensory_box; TIGR00229 177437015271 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 177437015272 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 177437015273 DNA binding residues [nucleotide binding] 177437015274 dimerization interface [polypeptide binding]; other site 177437015275 Methyltransferase domain; Region: Methyltransf_31; pfam13847 177437015276 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 177437015277 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 177437015278 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 177437015279 putative dimer interface [polypeptide binding]; other site 177437015280 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 177437015281 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 177437015282 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 177437015283 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 177437015284 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 177437015285 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 177437015286 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 177437015287 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 177437015288 Walker A/P-loop; other site 177437015289 ATP binding site [chemical binding]; other site 177437015290 Q-loop/lid; other site 177437015291 ABC transporter signature motif; other site 177437015292 Walker B; other site 177437015293 D-loop; other site 177437015294 H-loop/switch region; other site 177437015295 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 177437015296 Walker A/P-loop; other site 177437015297 ATP binding site [chemical binding]; other site 177437015298 Q-loop/lid; other site 177437015299 ABC transporter signature motif; other site 177437015300 Walker B; other site 177437015301 D-loop; other site 177437015302 H-loop/switch region; other site 177437015303 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 177437015304 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 177437015305 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 177437015306 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177437015307 HlyD family secretion protein; Region: HlyD_3; pfam13437 177437015308 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 177437015309 FOG: CBS domain [General function prediction only]; Region: COG0517 177437015310 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 177437015311 HPP family; Region: HPP; pfam04982 177437015312 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 177437015313 putative metal binding site [ion binding]; other site 177437015314 Uncharacterized conserved protein [Function unknown]; Region: COG1432 177437015315 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 177437015316 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 177437015317 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 177437015318 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177437015319 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 177437015320 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 177437015321 putative hydrophobic ligand binding site [chemical binding]; other site 177437015322 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 177437015323 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 177437015324 putative NAD(P) binding site [chemical binding]; other site 177437015325 active site 177437015326 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 177437015327 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 177437015328 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 177437015329 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 177437015330 S-adenosylmethionine binding site [chemical binding]; other site 177437015331 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 177437015332 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 177437015333 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 177437015334 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 177437015335 nucleotide binding site/active site [active] 177437015336 HIT family signature motif; other site 177437015337 catalytic residue [active] 177437015338 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 177437015339 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 177437015340 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 177437015341 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 177437015342 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 177437015343 Ligand binding site [chemical binding]; other site 177437015344 Electron transfer flavoprotein domain; Region: ETF; pfam01012 177437015345 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437015346 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437015347 active site 177437015348 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 177437015349 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 177437015350 Walker A/P-loop; other site 177437015351 ATP binding site [chemical binding]; other site 177437015352 Q-loop/lid; other site 177437015353 ABC transporter signature motif; other site 177437015354 Walker B; other site 177437015355 D-loop; other site 177437015356 H-loop/switch region; other site 177437015357 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 177437015358 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 177437015359 Walker A/P-loop; other site 177437015360 ATP binding site [chemical binding]; other site 177437015361 Q-loop/lid; other site 177437015362 ABC transporter signature motif; other site 177437015363 Walker B; other site 177437015364 D-loop; other site 177437015365 H-loop/switch region; other site 177437015366 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 177437015367 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437015368 TM-ABC transporter signature motif; other site 177437015369 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 177437015370 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 177437015371 TM-ABC transporter signature motif; other site 177437015372 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 177437015373 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 177437015374 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 177437015375 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 177437015376 metal binding site [ion binding]; metal-binding site 177437015377 dimer interface [polypeptide binding]; other site 177437015378 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 177437015379 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 177437015380 active site 177437015381 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 177437015382 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 177437015383 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 177437015384 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437015385 AAA domain; Region: AAA_22; pfam13401 177437015386 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437015387 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177437015388 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437015389 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 177437015390 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 177437015391 non-specific DNA binding site [nucleotide binding]; other site 177437015392 salt bridge; other site 177437015393 sequence-specific DNA binding site [nucleotide binding]; other site 177437015394 HipA N-terminal domain; Region: Couple_hipA; pfam13657 177437015395 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 177437015396 HipA-like N-terminal domain; Region: HipA_N; pfam07805 177437015397 HipA-like C-terminal domain; Region: HipA_C; pfam07804 177437015398 MarR family; Region: MarR_2; cl17246 177437015399 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 177437015400 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 177437015401 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 177437015402 non-specific DNA binding site [nucleotide binding]; other site 177437015403 salt bridge; other site 177437015404 sequence-specific DNA binding site [nucleotide binding]; other site 177437015405 Domain of unknown function (DUF955); Region: DUF955; pfam06114 177437015406 Methyltransferase domain; Region: Methyltransf_26; pfam13659 177437015407 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 177437015408 Divergent AAA domain; Region: AAA_4; pfam04326 177437015409 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 177437015410 Protein kinase domain; Region: Pkinase; pfam00069 177437015411 Catalytic domain of Protein Kinases; Region: PKc; cd00180 177437015412 active site 177437015413 ATP binding site [chemical binding]; other site 177437015414 substrate binding site [chemical binding]; other site 177437015415 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 177437015416 activation loop (A-loop); other site 177437015417 HerA helicase [Replication, recombination, and repair]; Region: COG0433 177437015418 Domain of unknown function DUF87; Region: DUF87; pfam01935 177437015419 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 177437015420 Divergent AAA domain; Region: AAA_4; pfam04326 177437015421 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 177437015422 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 177437015423 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 177437015424 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 177437015425 Methyltransferase domain; Region: Methyltransf_26; pfam13659 177437015426 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 177437015427 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 177437015428 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 177437015429 dimer interface [polypeptide binding]; other site 177437015430 ssDNA binding site [nucleotide binding]; other site 177437015431 tetramer (dimer of dimers) interface [polypeptide binding]; other site 177437015432 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 177437015433 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 177437015434 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 177437015435 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 177437015436 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 177437015437 active site 177437015438 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 177437015439 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 177437015440 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 177437015441 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 177437015442 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 177437015443 dimer interface [polypeptide binding]; other site 177437015444 conserved gate region; other site 177437015445 putative PBP binding loops; other site 177437015446 ABC-ATPase subunit interface; other site 177437015447 dipeptide transporter; Provisional; Region: PRK10913 177437015448 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 177437015449 dimer interface [polypeptide binding]; other site 177437015450 conserved gate region; other site 177437015451 putative PBP binding loops; other site 177437015452 ABC-ATPase subunit interface; other site 177437015453 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 177437015454 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177437015455 Walker A/P-loop; other site 177437015456 ATP binding site [chemical binding]; other site 177437015457 Q-loop/lid; other site 177437015458 ABC transporter signature motif; other site 177437015459 Walker B; other site 177437015460 D-loop; other site 177437015461 H-loop/switch region; other site 177437015462 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 177437015463 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 177437015464 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177437015465 Walker A/P-loop; other site 177437015466 ATP binding site [chemical binding]; other site 177437015467 Q-loop/lid; other site 177437015468 ABC transporter signature motif; other site 177437015469 Walker B; other site 177437015470 D-loop; other site 177437015471 H-loop/switch region; other site 177437015472 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 177437015473 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 177437015474 anti sigma factor interaction site; other site 177437015475 regulatory phosphorylation site [posttranslational modification]; other site 177437015476 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 177437015477 Permease; Region: Permease; pfam02405 177437015478 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 177437015479 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177437015480 Walker A/P-loop; other site 177437015481 ATP binding site [chemical binding]; other site 177437015482 Q-loop/lid; other site 177437015483 ABC transporter signature motif; other site 177437015484 Walker B; other site 177437015485 D-loop; other site 177437015486 H-loop/switch region; other site 177437015487 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 177437015488 mce related protein; Region: MCE; pfam02470 177437015489 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 177437015490 dimerization interface [polypeptide binding]; other site 177437015491 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 177437015492 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 177437015493 metal binding site [ion binding]; metal-binding site 177437015494 active site 177437015495 I-site; other site 177437015496 EamA-like transporter family; Region: EamA; pfam00892 177437015497 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 177437015498 EamA-like transporter family; Region: EamA; pfam00892 177437015499 Predicted metal-binding protein [Function unknown]; Region: COG5561 177437015500 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 177437015501 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 177437015502 dimer interface [polypeptide binding]; other site 177437015503 active site 177437015504 glycine loop; other site 177437015505 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 177437015506 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 177437015507 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 177437015508 FeS/SAM binding site; other site 177437015509 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 177437015510 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 177437015511 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 177437015512 DNA binding site [nucleotide binding] 177437015513 active site 177437015514 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 177437015515 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 177437015516 AAA domain; Region: AAA_30; pfam13604 177437015517 Family description; Region: UvrD_C_2; pfam13538 177437015518 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 177437015519 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 177437015520 active site 177437015521 motif I; other site 177437015522 motif II; other site 177437015523 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 177437015524 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 177437015525 Sporulation related domain; Region: SPOR; pfam05036 177437015526 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 177437015527 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 177437015528 Walker A motif; other site 177437015529 ATP binding site [chemical binding]; other site 177437015530 Walker B motif; other site 177437015531 arginine finger; other site 177437015532 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 177437015533 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 177437015534 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 177437015535 putative dimer interface [polypeptide binding]; other site 177437015536 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 177437015537 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 177437015538 putative substrate translocation pore; other site 177437015539 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 177437015540 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 177437015541 dimer interface [polypeptide binding]; other site 177437015542 PYR/PP interface [polypeptide binding]; other site 177437015543 TPP binding site [chemical binding]; other site 177437015544 substrate binding site [chemical binding]; other site 177437015545 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177437015546 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 177437015547 Domain of unknown function; Region: EKR; smart00890 177437015548 4Fe-4S binding domain; Region: Fer4_6; pfam12837 177437015549 4Fe-4S binding domain; Region: Fer4; pfam00037 177437015550 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 177437015551 TPP-binding site [chemical binding]; other site 177437015552 dimer interface [polypeptide binding]; other site 177437015553 Putative exonuclease, RdgC; Region: RdgC; cl01122 177437015554 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 177437015555 Haemolytic domain; Region: Haemolytic; cl00506 177437015556 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 177437015557 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 177437015558 P-loop; other site 177437015559 Magnesium ion binding site [ion binding]; other site 177437015560 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 177437015561 Magnesium ion binding site [ion binding]; other site 177437015562 MobA/MobL family; Region: MobA_MobL; pfam03389 177437015563 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 177437015564 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 177437015565 active site 177437015566 metal binding site [ion binding]; metal-binding site 177437015567 CHC2 zinc finger; Region: zf-CHC2; cl17510 177437015568 transposase; Provisional; Region: PRK06526 177437015569 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 177437015570 Walker A motif; other site 177437015571 ATP binding site [chemical binding]; other site 177437015572 Walker B motif; other site 177437015573 Helix-turn-helix domain; Region: HTH_38; pfam13936 177437015574 ParB-like nuclease domain; Region: ParBc; cl02129 177437015575 KorB domain; Region: KorB; pfam08535 177437015576 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 177437015577 Cache domain; Region: Cache_2; cl07034 177437015578 PAS domain S-box; Region: sensory_box; TIGR00229 177437015579 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 177437015580 putative active site [active] 177437015581 heme pocket [chemical binding]; other site 177437015582 histidine kinase; Provisional; Region: PRK13557 177437015583 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 177437015584 putative active site [active] 177437015585 heme pocket [chemical binding]; other site 177437015586 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 177437015587 dimer interface [polypeptide binding]; other site 177437015588 phosphorylation site [posttranslational modification] 177437015589 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 177437015590 ATP binding site [chemical binding]; other site 177437015591 Mg2+ binding site [ion binding]; other site 177437015592 G-X-G motif; other site 177437015593 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437015594 active site 177437015595 phosphorylation site [posttranslational modification] 177437015596 intermolecular recognition site; other site 177437015597 dimerization interface [polypeptide binding]; other site 177437015598 PAS domain S-box; Region: sensory_box; TIGR00229 177437015599 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 177437015600 putative active site [active] 177437015601 heme pocket [chemical binding]; other site 177437015602 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 177437015603 dimer interface [polypeptide binding]; other site 177437015604 phosphorylation site [posttranslational modification] 177437015605 PAS fold; Region: PAS_3; pfam08447 177437015606 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 177437015607 putative active site [active] 177437015608 heme pocket [chemical binding]; other site 177437015609 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 177437015610 dimer interface [polypeptide binding]; other site 177437015611 phosphorylation site [posttranslational modification] 177437015612 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 177437015613 ATP binding site [chemical binding]; other site 177437015614 Mg2+ binding site [ion binding]; other site 177437015615 G-X-G motif; other site 177437015616 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437015617 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437015618 active site 177437015619 phosphorylation site [posttranslational modification] 177437015620 intermolecular recognition site; other site 177437015621 dimerization interface [polypeptide binding]; other site 177437015622 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 177437015623 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 177437015624 catalytic residues [active] 177437015625 catalytic nucleophile [active] 177437015626 Presynaptic Site I dimer interface [polypeptide binding]; other site 177437015627 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 177437015628 Synaptic Flat tetramer interface [polypeptide binding]; other site 177437015629 Synaptic Site I dimer interface [polypeptide binding]; other site 177437015630 DNA binding site [nucleotide binding] 177437015631 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 177437015632 DNA-binding interface [nucleotide binding]; DNA binding site 177437015633 Helix-turn-helix domain; Region: HTH_37; pfam13744 177437015634 non-specific DNA binding site [nucleotide binding]; other site 177437015635 salt bridge; other site 177437015636 sequence-specific DNA binding site [nucleotide binding]; other site 177437015637 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 177437015638 potential frameshift: common BLAST hit: gi|91775848|ref|YP_545604.1| transposase Tn3 177437015639 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 177437015640 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 177437015641 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 177437015642 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 177437015643 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 177437015644 DNA-binding interface [nucleotide binding]; DNA binding site 177437015645 Response regulator receiver domain; Region: Response_reg; pfam00072 177437015646 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437015647 active site 177437015648 phosphorylation site [posttranslational modification] 177437015649 intermolecular recognition site; other site 177437015650 dimerization interface [polypeptide binding]; other site 177437015651 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 177437015652 dimer interface [polypeptide binding]; other site 177437015653 phosphorylation site [posttranslational modification] 177437015654 PAS domain S-box; Region: sensory_box; TIGR00229 177437015655 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 177437015656 putative active site [active] 177437015657 heme pocket [chemical binding]; other site 177437015658 PAS domain; Region: PAS; smart00091 177437015659 PAS domain S-box; Region: sensory_box; TIGR00229 177437015660 PAS domain S-box; Region: sensory_box; TIGR00229 177437015661 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 177437015662 putative active site [active] 177437015663 heme pocket [chemical binding]; other site 177437015664 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 177437015665 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 177437015666 putative active site [active] 177437015667 heme pocket [chemical binding]; other site 177437015668 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 177437015669 putative active site [active] 177437015670 heme pocket [chemical binding]; other site 177437015671 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 177437015672 putative active site [active] 177437015673 PAS fold; Region: PAS_3; pfam08447 177437015674 heme pocket [chemical binding]; other site 177437015675 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177437015676 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 177437015677 dimer interface [polypeptide binding]; other site 177437015678 phosphorylation site [posttranslational modification] 177437015679 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 177437015680 ATP binding site [chemical binding]; other site 177437015681 Mg2+ binding site [ion binding]; other site 177437015682 G-X-G motif; other site 177437015683 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 177437015684 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 177437015685 active site 177437015686 phosphorylation site [posttranslational modification] 177437015687 intermolecular recognition site; other site 177437015688 dimerization interface [polypeptide binding]; other site 177437015689 Domain of unknown function (DUF4277); Region: DUF4277; pfam14104 177437015690 Transposase [DNA replication, recombination, and repair]; Region: COG5421 177437015691 multiple promoter invertase; Provisional; Region: mpi; PRK13413 177437015692 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 177437015693 catalytic residues [active] 177437015694 catalytic nucleophile [active] 177437015695 Presynaptic Site I dimer interface [polypeptide binding]; other site 177437015696 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 177437015697 Synaptic Flat tetramer interface [polypeptide binding]; other site 177437015698 Synaptic Site I dimer interface [polypeptide binding]; other site 177437015699 DNA binding site [nucleotide binding] 177437015700 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 177437015701 DNA-binding interface [nucleotide binding]; DNA binding site 177437015702 DNA binding domain, excisionase family; Region: excise; TIGR01764 177437015703 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 177437015704 putative active site [active] 177437015705 catalytic site [active] 177437015706 DEAD-like helicases superfamily; Region: DEXDc; smart00487 177437015707 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 177437015708 ATP binding site [chemical binding]; other site 177437015709 putative Mg++ binding site [ion binding]; other site 177437015710 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 177437015711 ATP-binding site [chemical binding]; other site 177437015712 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 177437015713 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 177437015714 DNA methylase; Region: N6_N4_Mtase; cl17433 177437015715 DNA methylase; Region: N6_N4_Mtase; pfam01555 177437015716 DNA methylase; Region: N6_N4_Mtase; cl17433 177437015717 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 177437015718 ATP binding site [chemical binding]; other site 177437015719 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 177437015720 catalytic residues [active] 177437015721 Homeodomain-like domain; Region: HTH_23; pfam13384 177437015722 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 177437015723 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 177437015724 Putative addiction module component; Region: Unstab_antitox; pfam09720 177437015725 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 177437015726 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 177437015727 catalytic residues [active] 177437015728 catalytic nucleophile [active] 177437015729 Presynaptic Site I dimer interface [polypeptide binding]; other site 177437015730 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 177437015731 Synaptic Flat tetramer interface [polypeptide binding]; other site 177437015732 Synaptic Site I dimer interface [polypeptide binding]; other site 177437015733 DNA binding site [nucleotide binding] 177437015734 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 177437015735 DNA-binding interface [nucleotide binding]; DNA binding site 177437015736 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 177437015737 catalytic residues [active] 177437015738 Homeodomain-like domain; Region: HTH_23; pfam13384 177437015739 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 177437015740 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 177437015741 Putative addiction module component; Region: Unstab_antitox; pfam09720 177437015742 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 177437015743 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 177437015744 catalytic residues [active] 177437015745 catalytic nucleophile [active] 177437015746 Presynaptic Site I dimer interface [polypeptide binding]; other site 177437015747 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 177437015748 Synaptic Flat tetramer interface [polypeptide binding]; other site 177437015749 Synaptic Site I dimer interface [polypeptide binding]; other site 177437015750 DNA binding site [nucleotide binding] 177437015751 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 177437015752 DNA-binding interface [nucleotide binding]; DNA binding site 177437015753 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 177437015754 GIY-YIG motif/motif A; other site 177437015755 putative active site [active] 177437015756 putative metal binding site [ion binding]; other site 177437015757 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 177437015758 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 177437015759 non-specific DNA binding site [nucleotide binding]; other site 177437015760 salt bridge; other site 177437015761 sequence-specific DNA binding site [nucleotide binding]; other site 177437015762 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 177437015763 HEAT repeats; Region: HEAT_2; pfam13646 177437015764 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 177437015765 Nucleotidyltransferase domain; Region: NTP_transf_2; pfam01909 177437015766 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 177437015767 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 177437015768 active site 177437015769 catalytic site [active] 177437015770 substrate binding site [chemical binding]; other site 177437015771 BRCA1 C Terminus (BRCT) domain; Region: BRCT; pfam00533 177437015772 Dimer interface [polypeptide binding]; other site 177437015773 BRCT sequence motif; other site 177437015774 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 177437015775 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 177437015776 active site 177437015777 metal binding site [ion binding]; metal-binding site 177437015778 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168