-- dump date 20140620_063845 -- class Genbank::misc_feature -- table misc_feature_note -- id note 458817000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 458817000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 458817000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817000004 Walker A motif; other site 458817000005 ATP binding site [chemical binding]; other site 458817000006 Walker B motif; other site 458817000007 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases 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 458817000008 arginine finger; other site 458817000009 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 458817000010 DnaA box-binding interface [nucleotide binding]; other site 458817000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 458817000012 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 458817000013 putative DNA binding surface [nucleotide binding]; other site 458817000014 dimer interface [polypeptide binding]; other site 458817000015 beta-clamp/clamp loader binding surface; other site 458817000016 beta-clamp/translesion DNA polymerase binding surface; other site 458817000017 recombination protein F; Reviewed; Region: recF; PRK00064 458817000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817000019 Walker A/P-loop; other site 458817000020 ATP binding site [chemical binding]; other site 458817000021 Q-loop/lid; other site 458817000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817000023 ABC transporter signature motif; other site 458817000024 Walker B; other site 458817000025 D-loop; other site 458817000026 H-loop/switch region; other site 458817000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 458817000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817000029 Mg2+ binding site [ion binding]; other site 458817000030 G-X-G motif; other site 458817000031 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 458817000032 anchoring element; other site 458817000033 dimer interface [polypeptide binding]; other site 458817000034 ATP binding site [chemical binding]; other site 458817000035 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 458817000036 active site 458817000037 putative metal-binding site [ion binding]; other site 458817000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 458817000039 HDOD domain; Region: HDOD; pfam08668 458817000040 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817000041 Zn2+ binding site [ion binding]; other site 458817000042 Mg2+ binding site [ion binding]; other site 458817000043 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 458817000044 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 458817000045 dimer interface [polypeptide binding]; other site 458817000046 motif 1; other site 458817000047 active site 458817000048 motif 2; other site 458817000049 motif 3; other site 458817000050 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 458817000051 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817000052 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 458817000053 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 458817000054 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 458817000055 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 458817000056 active site 458817000057 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 458817000058 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 458817000059 CPxP motif; other site 458817000060 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 458817000061 putative deacylase active site [active] 458817000062 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817000063 Coenzyme A binding pocket [chemical binding]; other site 458817000064 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 458817000065 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 458817000066 dimer interface [polypeptide binding]; other site 458817000067 active site 458817000068 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 458817000069 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 458817000070 substrate binding site [chemical binding]; other site 458817000071 oxyanion hole (OAH) forming residues; other site 458817000072 trimer interface [polypeptide binding]; other site 458817000073 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 458817000074 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 458817000075 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 458817000076 proline dipeptidase; Provisional; Region: PRK13607 458817000077 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 458817000078 active site 458817000079 hypothetical protein; Provisional; Region: PRK11568 458817000080 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 458817000081 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 458817000082 Cation transport protein; Region: TrkH; cl17365 458817000083 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 458817000084 Flavodoxin domain; Region: Flavodoxin_5; cl17428 458817000085 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 458817000086 dimerization interface [polypeptide binding]; other site 458817000087 putative DNA binding site [nucleotide binding]; other site 458817000088 putative Zn2+ binding site [ion binding]; other site 458817000089 Flavodoxin domain; Region: Flavodoxin_5; cl17428 458817000090 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 458817000091 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 458817000092 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 458817000093 TrkA-N domain; Region: TrkA_N; pfam02254 458817000094 TrkA-C domain; Region: TrkA_C; pfam02080 458817000095 TrkA-N domain; Region: TrkA_N; pfam02254 458817000096 TrkA-C domain; Region: TrkA_C; pfam02080 458817000097 16S rRNA methyltransferase B; Provisional; Region: PRK10901 458817000098 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 458817000099 putative RNA binding site [nucleotide binding]; other site 458817000100 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 458817000101 S-adenosylmethionine binding site [chemical binding]; other site 458817000102 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 458817000103 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 458817000104 putative active site [active] 458817000105 substrate binding site [chemical binding]; other site 458817000106 putative cosubstrate binding site; other site 458817000107 catalytic site [active] 458817000108 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 458817000109 substrate binding site [chemical binding]; other site 458817000110 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 458817000111 active site 458817000112 catalytic residues [active] 458817000113 metal binding site [ion binding]; metal-binding site 458817000114 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458817000115 hypothetical protein; Provisional; Region: PRK10736 458817000116 DNA protecting protein DprA; Region: dprA; TIGR00732 458817000117 Protein of unknown function (DUF494); Region: DUF494; pfam04361 458817000118 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458817000119 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 458817000120 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 458817000121 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 458817000122 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 458817000123 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 458817000124 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 458817000125 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 458817000126 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 458817000127 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 458817000128 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 458817000129 shikimate binding site; other site 458817000130 NAD(P) binding site [chemical binding]; other site 458817000131 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 458817000132 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 458817000133 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 458817000134 trimer interface [polypeptide binding]; other site 458817000135 putative metal binding site [ion binding]; other site 458817000136 Flagellin N-methylase; Region: FliB; pfam03692 458817000137 Predicted transcriptional regulator [Transcription]; Region: COG1959 458817000138 Transcriptional regulator; Region: Rrf2; cl17282 458817000139 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 458817000140 NodB motif; other site 458817000141 putative active site [active] 458817000142 putative catalytic site [active] 458817000143 Zn binding site [ion binding]; other site 458817000144 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 458817000145 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 458817000146 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 458817000147 protein binding site [polypeptide binding]; other site 458817000148 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 458817000149 Catalytic dyad [active] 458817000150 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 458817000151 Peptidase family M23; Region: Peptidase_M23; pfam01551 458817000152 phosphoglyceromutase; Provisional; Region: PRK05434 458817000153 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 458817000154 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 458817000155 active site residue [active] 458817000156 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 458817000157 SecA binding site; other site 458817000158 Preprotein binding site; other site 458817000159 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 458817000160 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 458817000161 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 458817000162 HI0933-like protein; Region: HI0933_like; pfam03486 458817000163 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458817000164 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 458817000165 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 458817000166 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 458817000167 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817000168 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458817000169 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 458817000170 Walker A/P-loop; other site 458817000171 ATP binding site [chemical binding]; other site 458817000172 Q-loop/lid; other site 458817000173 ABC transporter signature motif; other site 458817000174 Walker B; other site 458817000175 D-loop; other site 458817000176 H-loop/switch region; other site 458817000177 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 458817000178 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 458817000179 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 458817000180 NlpC/P60 family; Region: NLPC_P60; pfam00877 458817000181 Surface antigen; Region: Bac_surface_Ag; pfam01103 458817000182 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 458817000183 MPT binding site; other site 458817000184 trimer interface [polypeptide binding]; other site 458817000185 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 458817000186 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 458817000187 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 458817000188 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 458817000189 dimerization interface [polypeptide binding]; other site 458817000190 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817000191 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817000192 dimer interface [polypeptide binding]; other site 458817000193 putative CheW interface [polypeptide binding]; other site 458817000194 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 458817000195 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 458817000196 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 458817000197 ATP-binding cassette domain of the Na+ transporter; Region: ABC_NatA_sodium_exporter; cd03266 458817000198 Walker A/P-loop; other site 458817000199 ATP binding site [chemical binding]; other site 458817000200 Q-loop/lid; other site 458817000201 ABC transporter signature motif; other site 458817000202 Walker B; other site 458817000203 D-loop; other site 458817000204 H-loop/switch region; other site 458817000205 TAP-like protein; Region: Abhydrolase_4; pfam08386 458817000206 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458817000207 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 458817000208 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 458817000209 acyl-activating enzyme (AAE) consensus motif; other site 458817000210 putative AMP binding site [chemical binding]; other site 458817000211 putative active site [active] 458817000212 putative CoA binding site [chemical binding]; other site 458817000213 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 458817000214 active site 458817000215 Predicted acetyltransferase [General function prediction only]; Region: COG2388 458817000216 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 458817000217 active site 458817000218 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 458817000219 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 458817000220 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 458817000221 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 458817000222 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817000223 catalytic residue [active] 458817000224 AAA domain; Region: AAA_21; pfam13304 458817000225 TIGR02646 family protein; Region: TIGR02646 458817000226 imidazolonepropionase; Validated; Region: PRK09356 458817000227 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 458817000228 active site 458817000229 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 458817000230 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817000231 DNA-binding site [nucleotide binding]; DNA binding site 458817000232 UTRA domain; Region: UTRA; pfam07702 458817000233 urocanate hydratase; Provisional; Region: PRK05414 458817000234 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 458817000235 active sites [active] 458817000236 tetramer interface [polypeptide binding]; other site 458817000237 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817000238 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 458817000239 Coenzyme A binding pocket [chemical binding]; other site 458817000240 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000241 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817000242 The C-terminal substrate-domain of LysR-type transcriptional regulator, OccR, involved in the catabolism of octopine, contains the type 2 periplasmic binding fold; Region: PBP2_OccR; cd08457 458817000243 putative dimerization interface [polypeptide binding]; other site 458817000244 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 458817000245 homotrimer interaction site [polypeptide binding]; other site 458817000246 putative active site [active] 458817000247 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 458817000248 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 458817000249 D-cysteine desulfhydrase; Validated; Region: PRK03910 458817000250 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 458817000251 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817000252 catalytic residue [active] 458817000253 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458817000254 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 458817000255 Cupin domain; Region: Cupin_2; cl17218 458817000256 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 458817000257 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 458817000258 dimer interface [polypeptide binding]; other site 458817000259 active site 458817000260 metal binding site [ion binding]; metal-binding site 458817000261 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 458817000262 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 458817000263 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817000264 LysE type translocator; Region: LysE; cl00565 458817000265 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 458817000266 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 458817000267 putative acyl-acceptor binding pocket; other site 458817000268 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 458817000269 SnoaL-like domain; Region: SnoaL_3; pfam13474 458817000270 NRDE protein; Region: NRDE; cl01315 458817000271 putative antibiotic transporter; Provisional; Region: PRK10739 458817000272 alpha-glucosidase; Provisional; Region: PRK10137 458817000273 Trehalase; Region: Trehalase; cl17346 458817000274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 458817000275 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 458817000276 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 458817000277 FOG: PKD repeat [General function prediction only]; Region: COG3291 458817000278 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 458817000279 Chorismate lyase; Region: Chor_lyase; cl01230 458817000280 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 458817000281 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 458817000282 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 458817000283 S-adenosylmethionine binding site [chemical binding]; other site 458817000284 Helix-turn-helix domain; Region: HTH_17; pfam12728 458817000285 PBP superfamily domain; Region: PBP_like; pfam12727 458817000286 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 458817000287 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 458817000288 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 458817000289 Ferredoxin [Energy production and conversion]; Region: COG1146 458817000290 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 458817000291 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 458817000292 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 458817000293 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458817000294 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 458817000295 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 458817000296 [4Fe-4S] binding site [ion binding]; other site 458817000297 molybdopterin cofactor binding site; other site 458817000298 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 458817000299 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 458817000300 molybdopterin cofactor binding site; other site 458817000301 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 458817000302 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 458817000303 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817000304 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 458817000305 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 458817000306 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 458817000307 [4Fe-4S] binding site [ion binding]; other site 458817000308 molybdopterin cofactor binding site; other site 458817000309 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 458817000310 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 458817000311 molybdopterin cofactor binding site; other site 458817000312 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 458817000313 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 458817000314 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817000315 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 458817000316 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 458817000317 [4Fe-4S] binding site [ion binding]; other site 458817000318 molybdopterin cofactor binding site; other site 458817000319 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 458817000320 molybdopterin cofactor binding site; other site 458817000321 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 458817000322 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 458817000323 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817000324 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 458817000325 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 458817000326 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 458817000327 substrate binding site [chemical binding]; other site 458817000328 ATP binding site [chemical binding]; other site 458817000329 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817000330 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817000331 metal binding site [ion binding]; metal-binding site 458817000332 active site 458817000333 I-site; other site 458817000334 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 458817000335 MOSC domain; Region: MOSC; pfam03473 458817000336 3-alpha domain; Region: 3-alpha; pfam03475 458817000337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 458817000338 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 458817000339 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 458817000340 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 458817000341 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 458817000342 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 458817000343 FeS/SAM binding site; other site 458817000344 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 458817000345 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 458817000346 MPT binding site; other site 458817000347 trimer interface [polypeptide binding]; other site 458817000348 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 458817000349 trimer interface [polypeptide binding]; other site 458817000350 dimer interface [polypeptide binding]; other site 458817000351 putative active site [active] 458817000352 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 458817000353 MoaE interaction surface [polypeptide binding]; other site 458817000354 MoeB interaction surface [polypeptide binding]; other site 458817000355 thiocarboxylated glycine; other site 458817000356 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 458817000357 MoaE homodimer interface [polypeptide binding]; other site 458817000358 MoaD interaction [polypeptide binding]; other site 458817000359 active site residues [active] 458817000360 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 458817000361 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 458817000362 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 458817000363 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817000364 dimer interface [polypeptide binding]; other site 458817000365 conserved gate region; other site 458817000366 putative PBP binding loops; other site 458817000367 ABC-ATPase subunit interface; other site 458817000368 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817000369 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 458817000370 Walker A/P-loop; other site 458817000371 ATP binding site [chemical binding]; other site 458817000372 Q-loop/lid; other site 458817000373 ABC transporter signature motif; other site 458817000374 Walker B; other site 458817000375 D-loop; other site 458817000376 H-loop/switch region; other site 458817000377 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 458817000378 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 458817000379 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817000380 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817000381 active site 458817000382 phosphorylation site [posttranslational modification] 458817000383 intermolecular recognition site; other site 458817000384 dimerization interface [polypeptide binding]; other site 458817000385 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 458817000386 DNA binding site [nucleotide binding] 458817000387 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817000388 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 458817000389 dimerization interface [polypeptide binding]; other site 458817000390 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 458817000391 dimer interface [polypeptide binding]; other site 458817000392 phosphorylation site [posttranslational modification] 458817000393 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817000394 ATP binding site [chemical binding]; other site 458817000395 Mg2+ binding site [ion binding]; other site 458817000396 G-X-G motif; other site 458817000397 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 458817000398 active site 458817000399 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 458817000400 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 458817000401 active site 458817000402 (T/H)XGH motif; other site 458817000403 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 458817000404 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 458817000405 Ligand binding site; other site 458817000406 Putative Catalytic site; other site 458817000407 DXD motif; other site 458817000408 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 458817000409 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 458817000410 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 458817000411 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 458817000412 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 458817000413 DNA binding site [nucleotide binding] 458817000414 catalytic residue [active] 458817000415 H2TH interface [polypeptide binding]; other site 458817000416 putative catalytic residues [active] 458817000417 turnover-facilitating residue; other site 458817000418 intercalation triad [nucleotide binding]; other site 458817000419 8OG recognition residue [nucleotide binding]; other site 458817000420 putative reading head residues; other site 458817000421 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 458817000422 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 458817000423 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 458817000424 BRO family, N-terminal domain; Region: Bro-N; cl10591 458817000425 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 458817000426 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 458817000427 FeS/SAM binding site; other site 458817000428 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 458817000429 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 458817000430 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 458817000431 Walker A motif; other site 458817000432 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 458817000433 dimer interface [polypeptide binding]; other site 458817000434 putative functional site; other site 458817000435 putative MPT binding site; other site 458817000436 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 458817000437 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 458817000438 GTP binding site; other site 458817000439 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 458817000440 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 458817000441 Walker A/P-loop; other site 458817000442 ATP binding site [chemical binding]; other site 458817000443 Q-loop/lid; other site 458817000444 ABC transporter signature motif; other site 458817000445 Walker B; other site 458817000446 D-loop; other site 458817000447 H-loop/switch region; other site 458817000448 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817000449 dimer interface [polypeptide binding]; other site 458817000450 conserved gate region; other site 458817000451 putative PBP binding loops; other site 458817000452 ABC-ATPase subunit interface; other site 458817000453 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 458817000454 PBP superfamily domain; Region: PBP_like_2; pfam12849 458817000455 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817000456 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817000457 active site 458817000458 phosphorylation site [posttranslational modification] 458817000459 intermolecular recognition site; other site 458817000460 dimerization interface [polypeptide binding]; other site 458817000461 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817000462 Walker A motif; other site 458817000463 ATP binding site [chemical binding]; other site 458817000464 Walker B motif; other site 458817000465 arginine finger; other site 458817000466 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817000467 HAMP domain; Region: HAMP; pfam00672 458817000468 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 458817000469 dimer interface [polypeptide binding]; other site 458817000470 phosphorylation site [posttranslational modification] 458817000471 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817000472 ATP binding site [chemical binding]; other site 458817000473 G-X-G motif; other site 458817000474 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817000475 Coenzyme A binding pocket [chemical binding]; other site 458817000476 hypothetical protein; Provisional; Region: PRK11212 458817000477 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 458817000478 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 458817000479 chorismate binding enzyme; Region: Chorismate_bind; cl10555 458817000480 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 458817000481 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 458817000482 N-terminal plug; other site 458817000483 ligand-binding site [chemical binding]; other site 458817000484 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 458817000485 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 458817000486 Walker A/P-loop; other site 458817000487 ATP binding site [chemical binding]; other site 458817000488 Q-loop/lid; other site 458817000489 ABC transporter signature motif; other site 458817000490 Walker B; other site 458817000491 D-loop; other site 458817000492 H-loop/switch region; other site 458817000493 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 458817000494 Walker A/P-loop; other site 458817000495 ATP binding site [chemical binding]; other site 458817000496 Q-loop/lid; other site 458817000497 ABC transporter signature motif; other site 458817000498 Walker B; other site 458817000499 D-loop; other site 458817000500 H-loop/switch region; other site 458817000501 Cobalt transport protein; Region: CbiQ; cl00463 458817000502 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 458817000503 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 458817000504 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817000505 Zn2+ binding site [ion binding]; other site 458817000506 Mg2+ binding site [ion binding]; other site 458817000507 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 458817000508 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 458817000509 conserved cys residue [active] 458817000510 Predicted membrane protein [Function unknown]; Region: COG2855 458817000511 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 458817000512 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 458817000513 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817000514 catalytic residue [active] 458817000515 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 458817000516 homotrimer interaction site [polypeptide binding]; other site 458817000517 putative active site [active] 458817000518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 458817000519 YheO-like PAS domain; Region: PAS_6; pfam08348 458817000520 HTH domain; Region: HTH_22; pfam13309 458817000521 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 458817000522 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 458817000523 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 458817000524 active site 458817000525 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 458817000526 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 458817000527 EamA-like transporter family; Region: EamA; pfam00892 458817000528 EamA-like transporter family; Region: EamA; pfam00892 458817000529 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 458817000530 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 458817000531 metal binding site [ion binding]; metal-binding site 458817000532 putative dimer interface [polypeptide binding]; other site 458817000533 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 458817000534 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817000535 putative substrate translocation pore; other site 458817000536 transcriptional regulator NarL; Provisional; Region: PRK10651 458817000537 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817000538 active site 458817000539 phosphorylation site [posttranslational modification] 458817000540 intermolecular recognition site; other site 458817000541 dimerization interface [polypeptide binding]; other site 458817000542 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 458817000543 DNA binding residues [nucleotide binding] 458817000544 dimerization interface [polypeptide binding]; other site 458817000545 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 458817000546 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 458817000547 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 458817000548 dimerization interface [polypeptide binding]; other site 458817000549 Histidine kinase; Region: HisKA_3; pfam07730 458817000550 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817000551 ATP binding site [chemical binding]; other site 458817000552 Mg2+ binding site [ion binding]; other site 458817000553 G-X-G motif; other site 458817000554 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 458817000555 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 458817000556 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 458817000557 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 458817000558 [4Fe-4S] binding site [ion binding]; other site 458817000559 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 458817000560 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 458817000561 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 458817000562 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 458817000563 molybdopterin cofactor binding site; other site 458817000564 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 458817000565 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458817000566 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 458817000567 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 458817000568 HPP family; Region: HPP; pfam04982 458817000569 Protein phosphatase 2C; Region: PP2C; pfam00481 458817000570 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 458817000571 active site 458817000572 Protein kinase domain; Region: Pkinase; pfam00069 458817000573 Catalytic domain of Protein Kinases; Region: PKc; cd00180 458817000574 active site 458817000575 ATP binding site [chemical binding]; other site 458817000576 substrate binding site [chemical binding]; other site 458817000577 activation loop (A-loop); other site 458817000578 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817000579 putative substrate translocation pore; other site 458817000580 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817000581 Predicted permeases [General function prediction only]; Region: RarD; COG2962 458817000582 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 458817000583 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 458817000584 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 458817000585 active site 458817000586 FMN binding site [chemical binding]; other site 458817000587 substrate binding site [chemical binding]; other site 458817000588 putative catalytic residue [active] 458817000589 BCCT family transporter; Region: BCCT; pfam02028 458817000590 glutathione reductase; Validated; Region: PRK06116 458817000591 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458817000592 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817000593 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 458817000594 oligopeptidase A; Provisional; Region: PRK10911 458817000595 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 458817000596 active site 458817000597 Zn binding site [ion binding]; other site 458817000598 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 458817000599 active site 458817000600 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 458817000601 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 458817000602 C-terminal domain interface [polypeptide binding]; other site 458817000603 GSH binding site (G-site) [chemical binding]; other site 458817000604 dimer interface [polypeptide binding]; other site 458817000605 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 458817000606 N-terminal domain interface [polypeptide binding]; other site 458817000607 dimer interface [polypeptide binding]; other site 458817000608 substrate binding pocket (H-site) [chemical binding]; other site 458817000609 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 458817000610 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 458817000611 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817000612 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817000613 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 458817000614 Protein export membrane protein; Region: SecD_SecF; cl14618 458817000615 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 458817000616 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458817000617 active site 458817000618 metal binding site [ion binding]; metal-binding site 458817000619 homotetramer interface [polypeptide binding]; other site 458817000620 Predicted permease; Region: DUF318; cl17795 458817000621 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 458817000622 Predicted permease; Region: DUF318; cl17795 458817000623 AbgT putative transporter family; Region: ABG_transport; pfam03806 458817000624 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 458817000625 AbgT putative transporter family; Region: ABG_transport; pfam03806 458817000626 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 458817000627 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 458817000628 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 458817000629 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 458817000630 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 458817000631 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817000632 catalytic residue [active] 458817000633 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 458817000634 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 458817000635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817000637 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 458817000638 dimerization interface [polypeptide binding]; other site 458817000639 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 458817000640 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 458817000641 DNA binding site [nucleotide binding] 458817000642 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817000643 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 458817000644 S-adenosylmethionine binding site [chemical binding]; other site 458817000645 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 458817000646 MgtE intracellular N domain; Region: MgtE_N; smart00924 458817000647 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 458817000648 Divalent cation transporter; Region: MgtE; pfam01769 458817000649 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817000650 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 458817000651 putative substrate translocation pore; other site 458817000652 ferredoxin-like protein FixX; Provisional; Region: PRK15449 458817000653 oxidoreductase; Provisional; Region: PRK10015 458817000654 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 458817000655 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 458817000656 Electron transfer flavoprotein domain; Region: ETF; smart00893 458817000657 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 458817000658 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 458817000659 Ligand binding site [chemical binding]; other site 458817000660 Electron transfer flavoprotein domain; Region: ETF; pfam01012 458817000661 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 458817000662 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 458817000663 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 458817000664 active site 458817000665 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 458817000666 CoA-transferase family III; Region: CoA_transf_3; pfam02515 458817000667 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 458817000668 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 458817000669 acyl-activating enzyme (AAE) consensus motif; other site 458817000670 putative AMP binding site [chemical binding]; other site 458817000671 putative active site [active] 458817000672 putative CoA binding site [chemical binding]; other site 458817000673 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 458817000674 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 458817000675 substrate binding site [chemical binding]; other site 458817000676 oxyanion hole (OAH) forming residues; other site 458817000677 trimer interface [polypeptide binding]; other site 458817000678 enoyl-CoA hydratase; Region: PLN02864 458817000679 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 458817000680 active site 2 [active] 458817000681 active site 1 [active] 458817000682 carnitine operon protein CaiE; Provisional; Region: PRK13627 458817000683 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 458817000684 putative trimer interface [polypeptide binding]; other site 458817000685 putative metal binding site [ion binding]; other site 458817000686 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 458817000687 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 458817000688 substrate binding pocket [chemical binding]; other site 458817000689 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817000690 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 458817000691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817000692 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 458817000693 dimerization interface [polypeptide binding]; other site 458817000694 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 458817000695 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 458817000696 catalytic residues [active] 458817000697 hinge region; other site 458817000698 alpha helical domain; other site 458817000699 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 458817000700 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817000701 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817000702 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817000703 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 458817000704 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 458817000705 catalytic residues [active] 458817000706 hinge region; other site 458817000707 alpha helical domain; other site 458817000708 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 458817000709 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817000710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000711 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 458817000712 LysR substrate binding domain; Region: LysR_substrate; pfam03466 458817000713 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 458817000714 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 458817000715 dimerization interface [polypeptide binding]; other site 458817000716 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 458817000717 dimer interface [polypeptide binding]; other site 458817000718 phosphorylation site [posttranslational modification] 458817000719 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817000720 ATP binding site [chemical binding]; other site 458817000721 Mg2+ binding site [ion binding]; other site 458817000722 G-X-G motif; other site 458817000723 osmolarity response regulator; Provisional; Region: ompR; PRK09468 458817000724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817000725 active site 458817000726 phosphorylation site [posttranslational modification] 458817000727 intermolecular recognition site; other site 458817000728 dimerization interface [polypeptide binding]; other site 458817000729 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 458817000730 DNA binding site [nucleotide binding] 458817000731 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 458817000732 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 458817000733 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 458817000734 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 458817000735 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 458817000736 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 458817000737 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 458817000738 RNA binding site [nucleotide binding]; other site 458817000739 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 458817000740 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 458817000741 DNA utilization protein GntX; Provisional; Region: PRK11595 458817000742 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 458817000743 putative active site [active] 458817000744 Zn binding site [ion binding]; other site 458817000745 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 458817000746 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 458817000747 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 458817000748 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 458817000749 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 458817000750 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 458817000751 putative active site [active] 458817000752 putative metal binding site [ion binding]; other site 458817000753 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 458817000754 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 458817000755 Cu(I) binding site [ion binding]; other site 458817000756 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 458817000757 UbiA prenyltransferase family; Region: UbiA; pfam01040 458817000758 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 458817000759 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 458817000760 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 458817000761 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 458817000762 Subunit III/VIIa interface [polypeptide binding]; other site 458817000763 Phospholipid binding site [chemical binding]; other site 458817000764 Subunit I/III interface [polypeptide binding]; other site 458817000765 Subunit III/VIb interface [polypeptide binding]; other site 458817000766 Subunit III/VIa interface; other site 458817000767 Subunit III/Vb interface [polypeptide binding]; other site 458817000768 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 458817000769 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 458817000770 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 458817000771 Subunit I/III interface [polypeptide binding]; other site 458817000772 D-pathway; other site 458817000773 Subunit I/VIIc interface [polypeptide binding]; other site 458817000774 Subunit I/IV interface [polypeptide binding]; other site 458817000775 Subunit I/II interface [polypeptide binding]; other site 458817000776 Low-spin heme (heme a) binding site [chemical binding]; other site 458817000777 Subunit I/VIIa interface [polypeptide binding]; other site 458817000778 Subunit I/VIa interface [polypeptide binding]; other site 458817000779 Dimer interface; other site 458817000780 Putative water exit pathway; other site 458817000781 Binuclear center (heme a3/CuB) [ion binding]; other site 458817000782 K-pathway; other site 458817000783 Subunit I/Vb interface [polypeptide binding]; other site 458817000784 Putative proton exit pathway; other site 458817000785 Subunit I/VIb interface; other site 458817000786 Subunit I/VIc interface [polypeptide binding]; other site 458817000787 Electron transfer pathway; other site 458817000788 Subunit I/VIIIb interface [polypeptide binding]; other site 458817000789 Subunit I/VIIb interface [polypeptide binding]; other site 458817000790 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 458817000791 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 458817000792 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 458817000793 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 458817000794 Cytochrome c; Region: Cytochrom_C; pfam00034 458817000795 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 458817000796 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 458817000797 Cell division inhibitor SulA; Region: SulA; cl01880 458817000798 LexA repressor; Validated; Region: PRK00215 458817000799 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 458817000800 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 458817000801 Catalytic site [active] 458817000802 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 458817000803 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 458817000804 N- and C-terminal domain interface [polypeptide binding]; other site 458817000805 active site 458817000806 MgATP binding site [chemical binding]; other site 458817000807 catalytic site [active] 458817000808 metal binding site [ion binding]; metal-binding site 458817000809 carbohydrate binding site [chemical binding]; other site 458817000810 putative homodimer interface [polypeptide binding]; other site 458817000811 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 458817000812 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 458817000813 TM-ABC transporter signature motif; other site 458817000814 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 458817000815 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 458817000816 TM-ABC transporter signature motif; other site 458817000817 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 458817000818 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 458817000819 Walker A/P-loop; other site 458817000820 ATP binding site [chemical binding]; other site 458817000821 Q-loop/lid; other site 458817000822 ABC transporter signature motif; other site 458817000823 Walker B; other site 458817000824 D-loop; other site 458817000825 H-loop/switch region; other site 458817000826 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 458817000827 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 458817000828 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 458817000829 ligand binding site [chemical binding]; other site 458817000830 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 458817000831 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 458817000832 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817000833 FtsX-like permease family; Region: FtsX; pfam02687 458817000834 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 458817000835 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817000836 FtsX-like permease family; Region: FtsX; pfam02687 458817000837 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 458817000838 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458817000839 Walker A/P-loop; other site 458817000840 ATP binding site [chemical binding]; other site 458817000841 Q-loop/lid; other site 458817000842 ABC transporter signature motif; other site 458817000843 Walker B; other site 458817000844 D-loop; other site 458817000845 H-loop/switch region; other site 458817000846 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 458817000847 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 458817000848 putative acyl-acceptor binding pocket; other site 458817000849 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 458817000850 aromatic amino acid transport protein; Region: araaP; TIGR00837 458817000851 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 458817000852 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817000853 Helix-turn-helix domain; Region: HTH_18; pfam12833 458817000854 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817000855 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817000856 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817000857 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817000858 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817000859 metal binding site [ion binding]; metal-binding site 458817000860 active site 458817000861 I-site; other site 458817000862 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 458817000863 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458817000864 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 458817000865 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458817000866 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 458817000867 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817000868 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 458817000869 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817000870 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 458817000871 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 458817000872 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 458817000873 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 458817000874 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 458817000875 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 458817000876 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 458817000877 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 458817000878 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 458817000879 P loop; other site 458817000880 GTP binding site [chemical binding]; other site 458817000881 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 458817000882 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817000883 Walker A/P-loop; other site 458817000884 ATP binding site [chemical binding]; other site 458817000885 Q-loop/lid; other site 458817000886 ABC transporter signature motif; other site 458817000887 Walker B; other site 458817000888 D-loop; other site 458817000889 H-loop/switch region; other site 458817000890 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 458817000891 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 458817000892 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 458817000893 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817000894 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 458817000895 DNA binding residues [nucleotide binding] 458817000896 SnoaL-like domain; Region: SnoaL_2; pfam12680 458817000897 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 458817000898 calcium binding site 1 [ion binding]; other site 458817000899 active site 458817000900 catalytic triad [active] 458817000901 calcium binding site 2 [ion binding]; other site 458817000902 calcium binding site 3 [ion binding]; other site 458817000903 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 458817000904 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 458817000905 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 458817000906 acyl-activating enzyme (AAE) consensus motif; other site 458817000907 putative AMP binding site [chemical binding]; other site 458817000908 putative active site [active] 458817000909 putative CoA binding site [chemical binding]; other site 458817000910 O-succinylbenzoate synthase; Provisional; Region: PRK05105 458817000911 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 458817000912 active site 458817000913 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 458817000914 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 458817000915 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 458817000916 dimer interface [polypeptide binding]; other site 458817000917 tetramer interface [polypeptide binding]; other site 458817000918 PYR/PP interface [polypeptide binding]; other site 458817000919 TPP binding site [chemical binding]; other site 458817000920 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 458817000921 TPP-binding site; other site 458817000922 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000923 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817000924 LysR substrate binding domain; Region: LysR_substrate; pfam03466 458817000925 dimerization interface [polypeptide binding]; other site 458817000926 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000927 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817000928 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 458817000929 dimerization interface [polypeptide binding]; other site 458817000930 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 458817000931 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 458817000932 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 458817000933 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 458817000934 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 458817000935 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 458817000936 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817000937 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 458817000938 putative metal binding site [ion binding]; other site 458817000939 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 458817000940 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 458817000941 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 458817000942 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 458817000943 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 458817000944 TPR motif; other site 458817000945 binding surface 458817000946 Sel1-like repeats; Region: SEL1; smart00671 458817000947 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 458817000948 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817000949 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 458817000950 substrate binding pocket [chemical binding]; other site 458817000951 dimerization interface [polypeptide binding]; other site 458817000952 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817000953 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 458817000954 putative substrate translocation pore; other site 458817000955 DTW domain; Region: DTW; cl01221 458817000956 PAS domain S-box; Region: sensory_box; TIGR00229 458817000957 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 458817000958 putative active site [active] 458817000959 heme pocket [chemical binding]; other site 458817000960 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817000961 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817000962 metal binding site [ion binding]; metal-binding site 458817000963 active site 458817000964 I-site; other site 458817000965 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 458817000966 Methyltransferase domain; Region: Methyltransf_23; pfam13489 458817000967 Methyltransferase domain; Region: Methyltransf_11; pfam08241 458817000968 Flagellar protein YcgR; Region: YcgR_2; pfam12945 458817000969 PilZ domain; Region: PilZ; pfam07238 458817000970 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458817000971 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 458817000972 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817000973 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458817000974 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817000975 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 458817000976 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000977 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817000978 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 458817000979 substrate binding pocket [chemical binding]; other site 458817000980 dimerization interface [polypeptide binding]; other site 458817000981 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 458817000982 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 458817000983 hypothetical protein; Provisional; Region: PRK10977 458817000984 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 458817000985 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 458817000986 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458817000987 NAD(P) binding site [chemical binding]; other site 458817000988 catalytic residues [active] 458817000989 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 458817000990 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 458817000991 NADP binding site [chemical binding]; other site 458817000992 dimer interface [polypeptide binding]; other site 458817000993 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817000994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817000995 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 458817000996 substrate binding pocket [chemical binding]; other site 458817000997 dimerization interface [polypeptide binding]; other site 458817000998 L-aspartate oxidase; Provisional; Region: PRK06175 458817000999 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 458817001000 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 458817001001 heme-binding residues [chemical binding]; other site 458817001002 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817001003 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817001004 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 458817001005 dimerization interface [polypeptide binding]; other site 458817001006 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817001007 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817001008 two-component sensor protein; Provisional; Region: cpxA; PRK09470 458817001009 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 458817001010 dimerization interface [polypeptide binding]; other site 458817001011 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 458817001012 dimer interface [polypeptide binding]; other site 458817001013 phosphorylation site [posttranslational modification] 458817001014 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817001015 ATP binding site [chemical binding]; other site 458817001016 Mg2+ binding site [ion binding]; other site 458817001017 G-X-G motif; other site 458817001018 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 458817001019 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817001020 active site 458817001021 phosphorylation site [posttranslational modification] 458817001022 intermolecular recognition site; other site 458817001023 dimerization interface [polypeptide binding]; other site 458817001024 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 458817001025 DNA binding site [nucleotide binding] 458817001026 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 458817001027 dimer interface [polypeptide binding]; other site 458817001028 Cation efflux family; Region: Cation_efflux; cl00316 458817001029 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 458817001030 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 458817001031 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817001032 active site 458817001033 phosphorylation site [posttranslational modification] 458817001034 intermolecular recognition site; other site 458817001035 dimerization interface [polypeptide binding]; other site 458817001036 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817001037 Walker A motif; other site 458817001038 ATP binding site [chemical binding]; other site 458817001039 Walker B motif; other site 458817001040 arginine finger; other site 458817001041 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817001042 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 458817001043 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 458817001044 dimer interface [polypeptide binding]; other site 458817001045 phosphorylation site [posttranslational modification] 458817001046 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817001047 ATP binding site [chemical binding]; other site 458817001048 Mg2+ binding site [ion binding]; other site 458817001049 G-X-G motif; other site 458817001050 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 458817001051 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 458817001052 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 458817001053 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 458817001054 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 458817001055 potential catalytic triad [active] 458817001056 conserved cys residue [active] 458817001057 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 458817001058 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 458817001059 dimer interface [polypeptide binding]; other site 458817001060 active site 458817001061 metal binding site [ion binding]; metal-binding site 458817001062 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 458817001063 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 458817001064 putative DNA binding site [nucleotide binding]; other site 458817001065 putative Zn2+ binding site [ion binding]; other site 458817001066 AsnC family; Region: AsnC_trans_reg; pfam01037 458817001067 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 458817001068 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 458817001069 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 458817001070 non-specific DNA binding site [nucleotide binding]; other site 458817001071 salt bridge; other site 458817001072 sequence-specific DNA binding site [nucleotide binding]; other site 458817001073 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 458817001074 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817001075 glutamine synthetase; Provisional; Region: glnA; PRK09469 458817001076 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 458817001077 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 458817001078 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 458817001079 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 458817001080 G1 box; other site 458817001081 putative GEF interaction site [polypeptide binding]; other site 458817001082 GTP/Mg2+ binding site [chemical binding]; other site 458817001083 Switch I region; other site 458817001084 G2 box; other site 458817001085 G3 box; other site 458817001086 Switch II region; other site 458817001087 G4 box; other site 458817001088 G5 box; other site 458817001089 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 458817001090 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 458817001091 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 458817001092 pyridoxamine kinase; Validated; Region: PRK05756 458817001093 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 458817001094 dimer interface [polypeptide binding]; other site 458817001095 pyridoxal binding site [chemical binding]; other site 458817001096 ATP binding site [chemical binding]; other site 458817001097 4Fe-4S binding domain; Region: Fer4_5; pfam12801 458817001098 4Fe-4S binding domain; Region: Fer4_5; pfam12801 458817001099 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 458817001100 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 458817001101 hypothetical protein; Reviewed; Region: PRK01637 458817001102 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 458817001103 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 458817001104 putative active site [active] 458817001105 dimerization interface [polypeptide binding]; other site 458817001106 putative tRNAtyr binding site [nucleotide binding]; other site 458817001107 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 458817001108 active site residue [active] 458817001109 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 458817001110 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 458817001111 dimer interface [polypeptide binding]; other site 458817001112 active site 458817001113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001114 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 458817001115 NAD(P) binding site [chemical binding]; other site 458817001116 active site 458817001117 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 458817001118 putative active site 1 [active] 458817001119 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 458817001120 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 458817001121 dimer interface [polypeptide binding]; other site 458817001122 active site 458817001123 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 458817001124 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 458817001125 Predicted exporter [General function prediction only]; Region: COG4258 458817001126 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 458817001127 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 458817001128 active site 458817001129 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 458817001130 active sites [active] 458817001131 tetramer interface [polypeptide binding]; other site 458817001132 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 458817001133 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 458817001134 Ligand binding site; other site 458817001135 Putative Catalytic site; other site 458817001136 DXD motif; other site 458817001137 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 458817001138 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 458817001139 putative acyl-acceptor binding pocket; other site 458817001140 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 458817001141 active site 2 [active] 458817001142 dimer interface [polypeptide binding]; other site 458817001143 active site 1 [active] 458817001144 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 458817001145 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 458817001146 acyl-activating enzyme (AAE) consensus motif; other site 458817001147 AMP binding site [chemical binding]; other site 458817001148 active site 458817001149 CoA binding site [chemical binding]; other site 458817001150 Predicted membrane protein [Function unknown]; Region: COG4648 458817001151 acyl carrier protein; Provisional; Region: PRK05350 458817001152 Phosphopantetheine attachment site; Region: PP-binding; cl09936 458817001153 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 458817001154 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 458817001155 putative acyl-acceptor binding pocket; other site 458817001156 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 458817001157 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 458817001158 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 458817001159 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 458817001160 generic binding surface II; other site 458817001161 ssDNA binding site; other site 458817001162 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 458817001163 ATP binding site [chemical binding]; other site 458817001164 putative Mg++ binding site [ion binding]; other site 458817001165 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 458817001166 nucleotide binding region [chemical binding]; other site 458817001167 ATP-binding site [chemical binding]; other site 458817001168 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 458817001169 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 458817001170 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 458817001171 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 458817001172 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 458817001173 acyl-activating enzyme (AAE) consensus motif; other site 458817001174 putative AMP binding site [chemical binding]; other site 458817001175 putative active site [active] 458817001176 putative CoA binding site [chemical binding]; other site 458817001177 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 458817001178 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 458817001179 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 458817001180 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 458817001181 homotrimer interaction site [polypeptide binding]; other site 458817001182 putative active site [active] 458817001183 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 458817001184 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817001185 Zn2+ binding site [ion binding]; other site 458817001186 Mg2+ binding site [ion binding]; other site 458817001187 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 458817001188 synthetase active site [active] 458817001189 NTP binding site [chemical binding]; other site 458817001190 metal binding site [ion binding]; metal-binding site 458817001191 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 458817001192 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 458817001193 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 458817001194 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 458817001195 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 458817001196 catalytic site [active] 458817001197 G-X2-G-X-G-K; other site 458817001198 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 458817001199 active site 458817001200 Phosphotransferase enzyme family; Region: APH; pfam01636 458817001201 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 458817001202 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 458817001203 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 458817001204 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 458817001205 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 458817001206 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 458817001207 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 458817001208 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 458817001209 active site 458817001210 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 458817001211 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817001212 catalytic residue [active] 458817001213 Predicted permease; Region: DUF318; cl17795 458817001214 Uncharacterized low-complexity protein [Function unknown]; Region: COG3767 458817001215 ERCC4 domain; Region: ERCC4; smart00891 458817001216 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 458817001217 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458817001218 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 458817001219 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 458817001220 molybdopterin cofactor binding site; other site 458817001221 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 458817001222 molybdopterin cofactor binding site; other site 458817001223 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 458817001224 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 458817001225 4Fe-4S binding domain; Region: Fer4; pfam00037 458817001226 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 458817001227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817001228 active site 458817001229 phosphorylation site [posttranslational modification] 458817001230 intermolecular recognition site; other site 458817001231 dimerization interface [polypeptide binding]; other site 458817001232 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 458817001233 DNA binding residues [nucleotide binding] 458817001234 dimerization interface [polypeptide binding]; other site 458817001235 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 458817001236 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 458817001237 dimer interface [polypeptide binding]; other site 458817001238 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817001239 phosphorylation site [posttranslational modification] 458817001240 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817001241 ATP binding site [chemical binding]; other site 458817001242 Mg2+ binding site [ion binding]; other site 458817001243 G-X-G motif; other site 458817001244 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 458817001245 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 458817001246 active site pocket [active] 458817001247 putative transporter; Provisional; Region: PRK09950 458817001248 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 458817001249 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 458817001250 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 458817001251 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817001252 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 458817001253 dimerization interface [polypeptide binding]; other site 458817001254 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 458817001255 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817001256 DNA-binding site [nucleotide binding]; DNA binding site 458817001257 FCD domain; Region: FCD; pfam07729 458817001258 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 458817001259 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458817001260 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458817001261 Nucleoside recognition; Region: Gate; pfam07670 458817001262 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458817001263 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 458817001264 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 458817001265 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 458817001266 PLD-like domain; Region: PLDc_2; pfam13091 458817001267 putative homodimer interface [polypeptide binding]; other site 458817001268 putative active site [active] 458817001269 catalytic site [active] 458817001270 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458817001271 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 458817001272 ATP binding site [chemical binding]; other site 458817001273 putative Mg++ binding site [ion binding]; other site 458817001274 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 458817001275 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 458817001276 nucleotide binding region [chemical binding]; other site 458817001277 ATP-binding site [chemical binding]; other site 458817001278 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 458817001279 HipA N-terminal domain; Region: Couple_hipA; pfam13657 458817001280 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 458817001281 HipA-like N-terminal domain; Region: HipA_N; pfam07805 458817001282 HipA-like C-terminal domain; Region: HipA_C; pfam07804 458817001283 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 458817001284 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 458817001285 non-specific DNA binding site [nucleotide binding]; other site 458817001286 salt bridge; other site 458817001287 sequence-specific DNA binding site [nucleotide binding]; other site 458817001288 hypothetical protein; Provisional; Region: PRK11820 458817001289 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 458817001290 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 458817001291 ribonuclease PH; Reviewed; Region: rph; PRK00173 458817001292 Ribonuclease PH; Region: RNase_PH_bact; cd11362 458817001293 hexamer interface [polypeptide binding]; other site 458817001294 active site 458817001295 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817001296 active site 458817001297 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 458817001298 GTP cyclohydrolase I; Provisional; Region: PLN03044 458817001299 active site 458817001300 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 458817001301 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817001302 division inhibitor protein; Provisional; Region: slmA; PRK09480 458817001303 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817001304 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 458817001305 trimer interface [polypeptide binding]; other site 458817001306 active site 458817001307 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 458817001308 Flavoprotein; Region: Flavoprotein; pfam02441 458817001309 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 458817001310 hypothetical protein; Reviewed; Region: PRK00024 458817001311 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 458817001312 MPN+ (JAMM) motif; other site 458817001313 Zinc-binding site [ion binding]; other site 458817001314 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 458817001315 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 458817001316 N-acetylglutamate synthase; Validated; Region: PRK05279 458817001317 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 458817001318 putative feedback inhibition sensing region; other site 458817001319 putative nucleotide binding site [chemical binding]; other site 458817001320 putative substrate binding site [chemical binding]; other site 458817001321 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817001322 Coenzyme A binding pocket [chemical binding]; other site 458817001323 Predicted permeases [General function prediction only]; Region: RarD; COG2962 458817001324 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 458817001325 CoenzymeA binding site [chemical binding]; other site 458817001326 subunit interaction site [polypeptide binding]; other site 458817001327 PHB binding site; other site 458817001328 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 458817001329 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 458817001330 ATP binding site [chemical binding]; other site 458817001331 putative Mg++ binding site [ion binding]; other site 458817001332 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 458817001333 nucleotide binding region [chemical binding]; other site 458817001334 ATP-binding site [chemical binding]; other site 458817001335 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 458817001336 HRDC domain; Region: HRDC; pfam00570 458817001337 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817001338 metal binding site [ion binding]; metal-binding site 458817001339 I-site; other site 458817001340 2-isopropylmalate synthase; Validated; Region: PRK00915 458817001341 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 458817001342 active site 458817001343 catalytic residues [active] 458817001344 metal binding site [ion binding]; metal-binding site 458817001345 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 458817001346 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 458817001347 tartrate dehydrogenase; Region: TTC; TIGR02089 458817001348 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 458817001349 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 458817001350 substrate binding site [chemical binding]; other site 458817001351 ligand binding site [chemical binding]; other site 458817001352 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 458817001353 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 458817001354 substrate binding site [chemical binding]; other site 458817001355 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 458817001356 SnoaL-like domain; Region: SnoaL_2; pfam12680 458817001357 glycerol kinase; Provisional; Region: glpK; PRK00047 458817001358 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 458817001359 N- and C-terminal domain interface [polypeptide binding]; other site 458817001360 active site 458817001361 MgATP binding site [chemical binding]; other site 458817001362 catalytic site [active] 458817001363 metal binding site [ion binding]; metal-binding site 458817001364 glycerol binding site [chemical binding]; other site 458817001365 homotetramer interface [polypeptide binding]; other site 458817001366 homodimer interface [polypeptide binding]; other site 458817001367 FBP binding site [chemical binding]; other site 458817001368 protein IIAGlc interface [polypeptide binding]; other site 458817001369 cell division protein MraZ; Reviewed; Region: PRK00326 458817001370 MraZ protein; Region: MraZ; pfam02381 458817001371 MraZ protein; Region: MraZ; pfam02381 458817001372 MraW methylase family; Region: Methyltransf_5; pfam01795 458817001373 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 458817001374 Cell division protein FtsL; Region: FtsL; pfam04999 458817001375 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 458817001376 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 458817001377 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 458817001378 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 458817001379 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458817001380 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458817001381 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458817001382 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 458817001383 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458817001384 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458817001385 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458817001386 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 458817001387 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 458817001388 Mg++ binding site [ion binding]; other site 458817001389 putative catalytic motif [active] 458817001390 putative substrate binding site [chemical binding]; other site 458817001391 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 458817001392 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458817001393 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458817001394 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 458817001395 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 458817001396 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 458817001397 active site 458817001398 homodimer interface [polypeptide binding]; other site 458817001399 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 458817001400 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458817001401 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458817001402 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458817001403 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 458817001404 Cell division protein FtsQ; Region: FtsQ; pfam03799 458817001405 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 458817001406 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 458817001407 nucleotide binding site [chemical binding]; other site 458817001408 Cell division protein FtsA; Region: FtsA; pfam14450 458817001409 cell division protein FtsZ; Validated; Region: PRK09330 458817001410 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 458817001411 nucleotide binding site [chemical binding]; other site 458817001412 SulA interaction site; other site 458817001413 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 458817001414 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 458817001415 Protein of unknown function (DUF721); Region: DUF721; cl02324 458817001416 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 458817001417 Peptidase family M23; Region: Peptidase_M23; pfam01551 458817001418 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 458817001419 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 458817001420 SEC-C motif; Region: SEC-C; pfam02810 458817001421 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 458817001422 active site 458817001423 8-oxo-dGMP binding site [chemical binding]; other site 458817001424 nudix motif; other site 458817001425 metal binding site [ion binding]; metal-binding site 458817001426 Domain of unknown function (DUF329); Region: DUF329; pfam03884 458817001427 hypothetical protein; Provisional; Region: PRK05287 458817001428 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 458817001429 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 458817001430 CoA-binding site [chemical binding]; other site 458817001431 ATP-binding [chemical binding]; other site 458817001432 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 458817001433 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 458817001434 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 458817001435 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 458817001436 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 458817001437 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 458817001438 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 458817001439 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 458817001440 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 458817001441 Walker A motif; other site 458817001442 ATP binding site [chemical binding]; other site 458817001443 Walker B motif; other site 458817001444 Pilin (bacterial filament); Region: Pilin; pfam00114 458817001445 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 458817001446 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 458817001447 dimerization interface [polypeptide binding]; other site 458817001448 active site 458817001449 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 458817001450 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 458817001451 amidase catalytic site [active] 458817001452 Zn binding residues [ion binding]; other site 458817001453 substrate binding site [chemical binding]; other site 458817001454 regulatory protein AmpE; Provisional; Region: PRK10987 458817001455 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 458817001456 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817001457 DNA-binding site [nucleotide binding]; DNA binding site 458817001458 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 458817001459 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 458817001460 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 458817001461 dimer interface [polypeptide binding]; other site 458817001462 TPP-binding site [chemical binding]; other site 458817001463 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 458817001464 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 458817001465 E3 interaction surface; other site 458817001466 lipoyl attachment site [posttranslational modification]; other site 458817001467 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 458817001468 E3 interaction surface; other site 458817001469 lipoyl attachment site [posttranslational modification]; other site 458817001470 e3 binding domain; Region: E3_binding; pfam02817 458817001471 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 458817001472 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 458817001473 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 458817001474 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817001475 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 458817001476 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 458817001477 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 458817001478 PAS fold; Region: PAS_3; pfam08447 458817001479 PAS domain; Region: PAS_9; pfam13426 458817001480 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817001481 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817001482 metal binding site [ion binding]; metal-binding site 458817001483 active site 458817001484 I-site; other site 458817001485 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 458817001486 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 458817001487 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 458817001488 active site 458817001489 nucleophile elbow; other site 458817001490 Surface antigen; Region: Bac_surface_Ag; pfam01103 458817001491 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 458817001492 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 458817001493 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 458817001494 motif II; other site 458817001495 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 458817001496 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 458817001497 substrate binding site [chemical binding]; other site 458817001498 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 458817001499 substrate binding site [chemical binding]; other site 458817001500 ligand binding site [chemical binding]; other site 458817001501 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 458817001502 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 458817001503 substrate binding site [chemical binding]; other site 458817001504 active site 458817001505 PAS fold; Region: PAS_4; pfam08448 458817001506 PAS domain; Region: PAS; smart00091 458817001507 putative active site [active] 458817001508 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817001509 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817001510 metal binding site [ion binding]; metal-binding site 458817001511 active site 458817001512 I-site; other site 458817001513 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 458817001514 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 458817001515 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 458817001516 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 458817001517 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 458817001518 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 458817001519 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 458817001520 purine monophosphate binding site [chemical binding]; other site 458817001521 dimer interface [polypeptide binding]; other site 458817001522 putative catalytic residues [active] 458817001523 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 458817001524 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 458817001525 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 458817001526 DNA binding residues [nucleotide binding] 458817001527 dimer interface [polypeptide binding]; other site 458817001528 metal binding site [ion binding]; metal-binding site 458817001529 Predicted permease; Region: DUF318; cl17795 458817001530 Predicted permease; Region: DUF318; cl17795 458817001531 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 458817001532 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 458817001533 catalytic residues [active] 458817001534 hinge region; other site 458817001535 alpha helical domain; other site 458817001536 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 458817001537 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 458817001538 molybdopterin cofactor binding site; other site 458817001539 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 458817001540 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 458817001541 molybdopterin cofactor binding site; other site 458817001542 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 458817001543 4Fe-4S binding domain; Region: Fer4; pfam00037 458817001544 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 458817001545 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 458817001546 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817001547 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 458817001548 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 458817001549 selenocysteine synthase; Provisional; Region: PRK04311 458817001550 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 458817001551 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 458817001552 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817001553 catalytic residue [active] 458817001554 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 458817001555 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 458817001556 G1 box; other site 458817001557 putative GEF interaction site [polypeptide binding]; other site 458817001558 GTP/Mg2+ binding site [chemical binding]; other site 458817001559 Switch I region; other site 458817001560 G2 box; other site 458817001561 G3 box; other site 458817001562 Switch II region; other site 458817001563 G4 box; other site 458817001564 G5 box; other site 458817001565 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 458817001566 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 458817001567 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 458817001568 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 458817001569 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 458817001570 putative inner membrane protein; Provisional; Region: PRK11099 458817001571 Sulphur transport; Region: Sulf_transp; pfam04143 458817001572 hypothetical protein; Provisional; Region: PRK11018 458817001573 CPxP motif; other site 458817001574 hypothetical protein; Provisional; Region: PRK12378 458817001575 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817001576 LysR family transcriptional regulator; Provisional; Region: PRK14997 458817001577 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817001578 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 458817001579 putative effector binding pocket; other site 458817001580 dimerization interface [polypeptide binding]; other site 458817001581 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817001582 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817001583 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817001584 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 458817001585 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817001586 putative substrate translocation pore; other site 458817001587 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817001588 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 458817001589 Coenzyme A binding pocket [chemical binding]; other site 458817001590 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 458817001591 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 458817001592 active site 458817001593 catalytic residues [active] 458817001594 DNA binding site [nucleotide binding] 458817001595 Int/Topo IB signature motif; other site 458817001596 Putative phage integrase; Region: Phage_Integr_2; pfam13009 458817001597 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 458817001598 DNA binding site [nucleotide binding] 458817001599 active site 458817001600 Int/Topo IB signature motif; other site 458817001601 catalytic residues [active] 458817001602 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 458817001603 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 458817001604 putative active site [active] 458817001605 putative NTP binding site [chemical binding]; other site 458817001606 putative nucleic acid binding site [nucleotide binding]; other site 458817001607 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 458817001608 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 458817001609 putative active site [active] 458817001610 putative NTP binding site [chemical binding]; other site 458817001611 putative nucleic acid binding site [nucleotide binding]; other site 458817001612 Competence protein CoiA-like family; Region: CoiA; cl11541 458817001613 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 458817001614 non-specific DNA binding site [nucleotide binding]; other site 458817001615 salt bridge; other site 458817001616 sequence-specific DNA binding site [nucleotide binding]; other site 458817001617 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 458817001618 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 458817001619 ATP binding site [chemical binding]; other site 458817001620 putative Mg++ binding site [ion binding]; other site 458817001621 exonuclease SbcC; Region: sbcc; TIGR00618 458817001622 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817001623 Walker A/P-loop; other site 458817001624 ATP binding site [chemical binding]; other site 458817001625 Q-loop/lid; other site 458817001626 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 458817001627 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 458817001628 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 458817001629 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 458817001630 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817001631 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817001632 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 458817001633 substrate binding pocket [chemical binding]; other site 458817001634 dimerization interface [polypeptide binding]; other site 458817001635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817001636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817001637 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 458817001638 dimerization interface [polypeptide binding]; other site 458817001639 outer membrane protein A; Reviewed; Region: PRK10808 458817001640 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 458817001641 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817001642 ligand binding site [chemical binding]; other site 458817001643 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 458817001644 Conserved TM helix; Region: TM_helix; pfam05552 458817001645 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817001646 Protein of unknown function (DUF465); Region: DUF465; cl01070 458817001647 uridine phosphorylase; Provisional; Region: PRK11178 458817001648 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 458817001649 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817001650 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 458817001651 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 458817001652 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 458817001653 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 458817001654 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 458817001655 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_21; cd04680 458817001656 nudix motif; other site 458817001657 PAS domain S-box; Region: sensory_box; TIGR00229 458817001658 PAS domain; Region: PAS; smart00091 458817001659 putative active site [active] 458817001660 heme pocket [chemical binding]; other site 458817001661 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817001662 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817001663 metal binding site [ion binding]; metal-binding site 458817001664 active site 458817001665 I-site; other site 458817001666 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 458817001667 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 458817001668 homotrimer interaction site [polypeptide binding]; other site 458817001669 putative active site [active] 458817001670 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 458817001671 Part of AAA domain; Region: AAA_19; pfam13245 458817001672 Family description; Region: UvrD_C_2; pfam13538 458817001673 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 458817001674 UbiA prenyltransferase family; Region: UbiA; pfam01040 458817001675 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 458817001676 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 458817001677 metal binding site [ion binding]; metal-binding site 458817001678 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 458817001679 H+/citrate symporter [Energy production and conversion]; Region: CitM; cl17620 458817001680 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 458817001681 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 458817001682 catalytic residues [active] 458817001683 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 458817001684 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 458817001685 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 458817001686 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 458817001687 active site residue [active] 458817001688 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 458817001689 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 458817001690 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 458817001691 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 458817001692 TPR motif; other site 458817001693 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 458817001694 binding surface 458817001695 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 458817001696 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 458817001697 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 458817001698 NosL; Region: NosL; pfam05573 458817001699 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 458817001700 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458817001701 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 458817001702 Walker A/P-loop; other site 458817001703 ATP binding site [chemical binding]; other site 458817001704 Q-loop/lid; other site 458817001705 ABC transporter signature motif; other site 458817001706 Walker B; other site 458817001707 D-loop; other site 458817001708 H-loop/switch region; other site 458817001709 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 458817001710 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 458817001711 DNA binding site [nucleotide binding] 458817001712 Domain of unknown function (DUF1851); Region: DUF1851; pfam08906 458817001713 LysE type translocator; Region: LysE; cl00565 458817001714 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 458817001715 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 458817001716 active site residue [active] 458817001717 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 458817001718 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 458817001719 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 458817001720 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 458817001721 binding surface 458817001722 TPR motif; other site 458817001723 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 458817001724 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 458817001725 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 458817001726 NosL; Region: NosL; pfam05573 458817001727 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 458817001728 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 458817001729 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458817001730 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 458817001731 Walker A/P-loop; other site 458817001732 ATP binding site [chemical binding]; other site 458817001733 Q-loop/lid; other site 458817001734 ABC transporter signature motif; other site 458817001735 Walker B; other site 458817001736 D-loop; other site 458817001737 H-loop/switch region; other site 458817001738 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 458817001739 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 458817001740 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817001741 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 458817001742 DNA binding site [nucleotide binding] 458817001743 D-ribose pyranase; Provisional; Region: PRK11797 458817001744 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 458817001745 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 458817001746 Walker A/P-loop; other site 458817001747 ATP binding site [chemical binding]; other site 458817001748 Q-loop/lid; other site 458817001749 ABC transporter signature motif; other site 458817001750 Walker B; other site 458817001751 D-loop; other site 458817001752 H-loop/switch region; other site 458817001753 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 458817001754 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 458817001755 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 458817001756 TM-ABC transporter signature motif; other site 458817001757 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 458817001758 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 458817001759 ligand binding site [chemical binding]; other site 458817001760 dimerization interface [polypeptide binding]; other site 458817001761 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 458817001762 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 458817001763 substrate binding site [chemical binding]; other site 458817001764 dimer interface [polypeptide binding]; other site 458817001765 ATP binding site [chemical binding]; other site 458817001766 transcriptional repressor RbsR; Provisional; Region: PRK10423 458817001767 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458817001768 DNA binding site [nucleotide binding] 458817001769 domain linker motif; other site 458817001770 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 458817001771 dimerization interface [polypeptide binding]; other site 458817001772 ligand binding site [chemical binding]; other site 458817001773 FMN reductase; Validated; Region: fre; PRK08051 458817001774 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 458817001775 FAD binding pocket [chemical binding]; other site 458817001776 FAD binding motif [chemical binding]; other site 458817001777 phosphate binding motif [ion binding]; other site 458817001778 beta-alpha-beta structure motif; other site 458817001779 NAD binding pocket [chemical binding]; other site 458817001780 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 458817001781 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 458817001782 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 458817001783 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 458817001784 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 458817001785 catalytic residues [active] 458817001786 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 458817001787 aromatic amino acid transport protein; Region: araaP; TIGR00837 458817001788 glutamate dehydrogenase; Provisional; Region: PRK09414 458817001789 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 458817001790 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 458817001791 NAD(P) binding site [chemical binding]; other site 458817001792 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 458817001793 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 458817001794 active site 458817001795 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 458817001796 catalytic residues [active] 458817001797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001798 NAD(P) binding site [chemical binding]; other site 458817001799 active site 458817001800 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 458817001801 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 458817001802 carboxyltransferase (CT) interaction site; other site 458817001803 biotinylation site [posttranslational modification]; other site 458817001804 Dehydroquinase class II; Region: DHquinase_II; pfam01220 458817001805 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 458817001806 active site 458817001807 trimer interface [polypeptide binding]; other site 458817001808 dimer interface [polypeptide binding]; other site 458817001809 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 458817001810 hypothetical protein; Provisional; Region: PRK09256 458817001811 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 458817001812 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 458817001813 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 458817001814 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817001815 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817001816 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817001817 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 458817001818 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 458817001819 Domain of unknown function (DUF386); Region: DUF386; cl01047 458817001820 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 458817001821 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 458817001822 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 458817001823 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 458817001824 active site 458817001825 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 458817001826 metal binding site [ion binding]; metal-binding site 458817001827 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 458817001828 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 458817001829 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 458817001830 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 458817001831 NADP binding site [chemical binding]; other site 458817001832 active site 458817001833 putative substrate binding site [chemical binding]; other site 458817001834 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817001835 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817001836 ATP binding site [chemical binding]; other site 458817001837 Mg2+ binding site [ion binding]; other site 458817001838 G-X-G motif; other site 458817001839 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 458817001840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817001841 active site 458817001842 phosphorylation site [posttranslational modification] 458817001843 intermolecular recognition site; other site 458817001844 dimerization interface [polypeptide binding]; other site 458817001845 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817001846 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 458817001847 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 458817001848 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 458817001849 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 458817001850 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 458817001851 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 458817001852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817001853 NAD(P) binding site [chemical binding]; other site 458817001854 active site 458817001855 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817001856 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817001857 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 458817001858 putative effector binding pocket; other site 458817001859 dimerization interface [polypeptide binding]; other site 458817001860 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 458817001861 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 458817001862 dimerization interface [polypeptide binding]; other site 458817001863 DNA binding site [nucleotide binding] 458817001864 corepressor binding sites; other site 458817001865 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 458817001866 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 458817001867 homodimer interface [polypeptide binding]; other site 458817001868 substrate-cofactor binding pocket; other site 458817001869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817001870 catalytic residue [active] 458817001871 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 458817001872 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 458817001873 nucleotide binding site [chemical binding]; other site 458817001874 substrate binding site [chemical binding]; other site 458817001875 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 458817001876 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 458817001877 FAD binding site [chemical binding]; other site 458817001878 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 458817001879 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 458817001880 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 458817001881 EamA-like transporter family; Region: EamA; pfam00892 458817001882 EamA-like transporter family; Region: EamA; pfam00892 458817001883 helicase 45; Provisional; Region: PTZ00424 458817001884 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 458817001885 ATP binding site [chemical binding]; other site 458817001886 Mg++ binding site [ion binding]; other site 458817001887 motif III; other site 458817001888 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 458817001889 nucleotide binding region [chemical binding]; other site 458817001890 ATP-binding site [chemical binding]; other site 458817001891 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 458817001892 M28 Zn-Peptidases; Region: M28_like_2; cd05662 458817001893 Peptidase family M28; Region: Peptidase_M28; pfam04389 458817001894 metal binding site [ion binding]; metal-binding site 458817001895 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 458817001896 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 458817001897 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 458817001898 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 458817001899 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817001900 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817001901 putative substrate translocation pore; other site 458817001902 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 458817001903 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 458817001904 dimer interface [polypeptide binding]; other site 458817001905 ssDNA binding site [nucleotide binding]; other site 458817001906 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458817001907 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 458817001908 GAF domain; Region: GAF; cl17456 458817001909 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817001910 Walker A motif; other site 458817001911 ATP binding site [chemical binding]; other site 458817001912 Walker B motif; other site 458817001913 arginine finger; other site 458817001914 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817001915 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 458817001916 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458817001917 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 458817001918 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 458817001919 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; cd00640 458817001920 catalytic residue [active] 458817001921 peptidase; Reviewed; Region: PRK13004 458817001922 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 458817001923 putative metal binding site [ion binding]; other site 458817001924 putative dimer interface [polypeptide binding]; other site 458817001925 phenylhydantoinase; Validated; Region: PRK08323 458817001926 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 458817001927 tetramer interface [polypeptide binding]; other site 458817001928 active site 458817001929 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 458817001930 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 458817001931 putative substrate binding site [chemical binding]; other site 458817001932 nucleotide binding site [chemical binding]; other site 458817001933 nucleotide binding site [chemical binding]; other site 458817001934 homodimer interface [polypeptide binding]; other site 458817001935 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Provisional; Region: PRK12779 458817001936 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 458817001937 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 458817001938 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 458817001939 FAD binding pocket [chemical binding]; other site 458817001940 FAD binding motif [chemical binding]; other site 458817001941 phosphate binding motif [ion binding]; other site 458817001942 beta-alpha-beta structure motif; other site 458817001943 NAD binding pocket [chemical binding]; other site 458817001944 Iron coordination center [ion binding]; other site 458817001945 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 458817001946 dimer interface [polypeptide binding]; other site 458817001947 PYR/PP interface [polypeptide binding]; other site 458817001948 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 458817001949 TPP binding site [chemical binding]; other site 458817001950 substrate binding site [chemical binding]; other site 458817001951 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 458817001952 4Fe-4S binding domain; Region: Fer4_6; pfam12837 458817001953 4Fe-4S binding domain; Region: Fer4; pfam00037 458817001954 Thiamine pyrophosphate (TPP family), Pyruvate ferredoxin/flavodoxin oxidoreductase (PFOR) subfamily, TPP-binding module; PFOR catalyzes the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. Archaea; Region: TPP_PFOR; cd02018 458817001955 dimer interface [polypeptide binding]; other site 458817001956 TPP-binding site [chemical binding]; other site 458817001957 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 458817001958 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 458817001959 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 458817001960 XdhC Rossmann domain; Region: XdhC_C; pfam13478 458817001961 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 458817001962 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 458817001963 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 458817001964 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 458817001965 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 458817001966 Ligand binding site; other site 458817001967 metal-binding site 458817001968 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 458817001969 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 458817001970 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458817001971 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 458817001972 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 458817001973 active site 458817001974 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 458817001975 homotrimer interaction site [polypeptide binding]; other site 458817001976 putative active site [active] 458817001977 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 458817001978 homotrimer interaction site [polypeptide binding]; other site 458817001979 putative active site [active] 458817001980 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 458817001981 homotrimer interaction site [polypeptide binding]; other site 458817001982 putative active site [active] 458817001983 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 458817001984 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 458817001985 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 458817001986 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 458817001987 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 458817001988 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 458817001989 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 458817001990 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 458817001991 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458817001992 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 458817001993 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 458817001994 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 458817001995 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 458817001996 putative oxidoreductase; Provisional; Region: PRK09799 458817001997 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 458817001998 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 458817001999 putative hypoxanthine oxidase; Provisional; Region: PRK09800 458817002000 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 458817002001 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 458817002002 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 458817002003 xanthine permease; Region: pbuX; TIGR03173 458817002004 guanine deaminase; Provisional; Region: PRK09228 458817002005 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 458817002006 active site 458817002007 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458817002008 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817002009 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 458817002010 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 458817002011 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817002012 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 458817002013 4Fe-4S binding domain; Region: Fer4; pfam00037 458817002014 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 458817002015 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 458817002016 [4Fe-4S] binding site [ion binding]; other site 458817002017 molybdopterin cofactor binding site; other site 458817002018 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 458817002019 molybdopterin cofactor binding site; other site 458817002020 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 458817002021 active site 458817002022 catalytic residues [active] 458817002023 galactokinase; Provisional; Region: PRK05101 458817002024 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 458817002025 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 458817002026 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 458817002027 Na binding site [ion binding]; other site 458817002028 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 458817002029 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 458817002030 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 458817002031 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 458817002032 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 458817002033 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817002034 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 458817002035 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 458817002036 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 458817002037 TrkA-N domain; Region: TrkA_N; pfam02254 458817002038 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 458817002039 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 458817002040 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 458817002041 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 458817002042 DsbD alpha interface [polypeptide binding]; other site 458817002043 catalytic residues [active] 458817002044 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 458817002045 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 458817002046 Protein kinase domain; Region: Pkinase; pfam00069 458817002047 Catalytic domain of Protein Kinases; Region: PKc; cd00180 458817002048 active site 458817002049 ATP binding site [chemical binding]; other site 458817002050 substrate binding site [chemical binding]; other site 458817002051 activation loop (A-loop); other site 458817002052 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 458817002053 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 458817002054 eyelet of channel; other site 458817002055 trimer interface [polypeptide binding]; other site 458817002056 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 458817002057 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 458817002058 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 458817002059 eyelet of channel; other site 458817002060 trimer interface [polypeptide binding]; other site 458817002061 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 458817002062 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 458817002063 putative ATP binding site [chemical binding]; other site 458817002064 putative substrate interface [chemical binding]; other site 458817002065 Superinfection exclusion protein B; Region: SieB; pfam14163 458817002066 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 458817002067 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 458817002068 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817002069 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 458817002070 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 458817002071 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 458817002072 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 458817002073 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458817002074 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 458817002075 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817002076 metabolite-proton symporter; Region: 2A0106; TIGR00883 458817002077 putative substrate translocation pore; other site 458817002078 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 458817002079 EamA-like transporter family; Region: EamA; pfam00892 458817002080 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 458817002081 homotrimer interaction site [polypeptide binding]; other site 458817002082 putative active site [active] 458817002083 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 458817002084 homotrimer interaction site [polypeptide binding]; other site 458817002085 putative active site [active] 458817002086 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 458817002087 homotrimer interaction site [polypeptide binding]; other site 458817002088 putative active site [active] 458817002089 ornithine carbamoyltransferase; Validated; Region: PRK02102 458817002090 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458817002091 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 458817002092 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 458817002093 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 458817002094 putative substrate binding site [chemical binding]; other site 458817002095 nucleotide binding site [chemical binding]; other site 458817002096 nucleotide binding site [chemical binding]; other site 458817002097 homodimer interface [polypeptide binding]; other site 458817002098 arginine deiminase; Provisional; Region: PRK01388 458817002099 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 458817002100 hypothetical protein; Provisional; Region: PRK09947 458817002101 putative oxidoreductase; Provisional; Region: PRK09849 458817002102 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 458817002103 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 458817002104 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 458817002105 hypothetical protein; Provisional; Region: PRK09898 458817002106 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 458817002107 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_2; cd06160 458817002108 Peptidase family M50; Region: Peptidase_M50; pfam02163 458817002109 active site 458817002110 putative substrate binding region [chemical binding]; other site 458817002111 Protein of unknown function (DUF342); Region: DUF342; pfam03961 458817002112 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 458817002113 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 458817002114 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 458817002115 S-adenosylmethionine binding site [chemical binding]; other site 458817002116 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 458817002117 dimer interface [polypeptide binding]; other site 458817002118 Alkaline phosphatase homologues; Region: alkPPc; smart00098 458817002119 active site 458817002120 glutathione synthetase; Provisional; Region: PRK05246 458817002121 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 458817002122 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 458817002123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 458817002124 RNA methyltransferase, RsmE family; Region: TIGR00046 458817002125 DNA-specific endonuclease I; Provisional; Region: PRK15137 458817002126 Endonuclease I; Region: Endonuclease_1; pfam04231 458817002127 hypothetical protein; Provisional; Region: PRK04860 458817002128 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 458817002129 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 458817002130 putative substrate binding pocket [chemical binding]; other site 458817002131 AC domain interface; other site 458817002132 catalytic triad [active] 458817002133 AB domain interface; other site 458817002134 interchain disulfide; other site 458817002135 LysR family transcriptional regulator; Provisional; Region: PRK14997 458817002136 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817002137 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 458817002138 putative effector binding pocket; other site 458817002139 dimerization interface [polypeptide binding]; other site 458817002140 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 458817002141 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 458817002142 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458817002143 ATP-grasp domain; Region: ATP-grasp_4; cl17255 458817002144 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 458817002145 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 458817002146 carboxyltransferase (CT) interaction site; other site 458817002147 biotinylation site [posttranslational modification]; other site 458817002148 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 458817002149 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 458817002150 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 458817002151 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458817002152 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 458817002153 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 458817002154 motif II; other site 458817002155 Soluble P-type ATPase [General function prediction only]; Region: COG4087 458817002156 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 458817002157 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817002158 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817002159 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 458817002160 putative dimerization interface [polypeptide binding]; other site 458817002161 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 458817002162 Ligand Binding Site [chemical binding]; other site 458817002163 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 458817002164 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 458817002165 4Fe-4S binding domain; Region: Fer4_5; pfam12801 458817002166 4Fe-4S binding domain; Region: Fer4_5; pfam12801 458817002167 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 458817002168 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 458817002169 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 458817002170 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 458817002171 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 458817002172 [4Fe-4S] binding site [ion binding]; other site 458817002173 molybdopterin cofactor binding site; other site 458817002174 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 458817002175 molybdopterin cofactor binding site; other site 458817002176 NapD protein; Region: NapD; pfam03927 458817002177 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 458817002178 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 458817002179 FtsX-like permease family; Region: FtsX; pfam02687 458817002180 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458817002181 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 458817002182 Walker A/P-loop; other site 458817002183 ATP binding site [chemical binding]; other site 458817002184 Q-loop/lid; other site 458817002185 ABC transporter signature motif; other site 458817002186 Walker B; other site 458817002187 D-loop; other site 458817002188 H-loop/switch region; other site 458817002189 Cache domain; Region: Cache_1; pfam02743 458817002190 PAS domain; Region: PAS_9; pfam13426 458817002191 PAS domain S-box; Region: sensory_box; TIGR00229 458817002192 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 458817002193 putative active site [active] 458817002194 heme pocket [chemical binding]; other site 458817002195 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 458817002196 PAS fold; Region: PAS_3; pfam08447 458817002197 putative active site [active] 458817002198 heme pocket [chemical binding]; other site 458817002199 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 458817002200 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 458817002201 putative active site [active] 458817002202 heme pocket [chemical binding]; other site 458817002203 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 458817002204 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458817002205 putative active site [active] 458817002206 heme pocket [chemical binding]; other site 458817002207 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 458817002208 dimer interface [polypeptide binding]; other site 458817002209 phosphorylation site [posttranslational modification] 458817002210 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817002211 ATP binding site [chemical binding]; other site 458817002212 Mg2+ binding site [ion binding]; other site 458817002213 G-X-G motif; other site 458817002214 Response regulator receiver domain; Region: Response_reg; pfam00072 458817002215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002216 active site 458817002217 phosphorylation site [posttranslational modification] 458817002218 intermolecular recognition site; other site 458817002219 dimerization interface [polypeptide binding]; other site 458817002220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002221 Response regulator receiver domain; Region: Response_reg; pfam00072 458817002222 active site 458817002223 phosphorylation site [posttranslational modification] 458817002224 intermolecular recognition site; other site 458817002225 dimerization interface [polypeptide binding]; other site 458817002226 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 458817002227 putative binding surface; other site 458817002228 active site 458817002229 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 458817002230 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002231 active site 458817002232 phosphorylation site [posttranslational modification] 458817002233 intermolecular recognition site; other site 458817002234 dimerization interface [polypeptide binding]; other site 458817002235 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817002236 Zn2+ binding site [ion binding]; other site 458817002237 Mg2+ binding site [ion binding]; other site 458817002238 putative global regulator; Reviewed; Region: PRK09559 458817002239 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 458817002240 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 458817002241 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 458817002242 ligand binding site [chemical binding]; other site 458817002243 NAD binding site [chemical binding]; other site 458817002244 tetramer interface [polypeptide binding]; other site 458817002245 catalytic site [active] 458817002246 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 458817002247 L-serine binding site [chemical binding]; other site 458817002248 ACT domain interface; other site 458817002249 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 458817002250 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458817002251 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458817002252 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458817002253 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 458817002254 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 458817002255 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 458817002256 CoenzymeA binding site [chemical binding]; other site 458817002257 subunit interaction site [polypeptide binding]; other site 458817002258 PHB binding site; other site 458817002259 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 458817002260 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 458817002261 tetramer interface [polypeptide binding]; other site 458817002262 heme binding pocket [chemical binding]; other site 458817002263 NADPH binding site [chemical binding]; other site 458817002264 Predicted membrane protein [Function unknown]; Region: COG2119 458817002265 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 458817002266 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 458817002267 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 458817002268 aromatic amino acid transport protein; Region: araaP; TIGR00837 458817002269 Peptidase S46; Region: Peptidase_S46; pfam10459 458817002270 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 458817002271 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 458817002272 RNA binding surface [nucleotide binding]; other site 458817002273 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 458817002274 probable active site [active] 458817002275 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 458817002276 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 458817002277 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 458817002278 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 458817002279 homodimer interface [polypeptide binding]; other site 458817002280 substrate-cofactor binding pocket; other site 458817002281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817002282 catalytic residue [active] 458817002283 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817002284 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817002285 metal binding site [ion binding]; metal-binding site 458817002286 active site 458817002287 I-site; other site 458817002288 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 458817002289 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 458817002290 trimer interface [polypeptide binding]; other site 458817002291 eyelet of channel; other site 458817002292 Uncharacterized conserved protein [Function unknown]; Region: COG2968 458817002293 oxidative stress defense protein; Provisional; Region: PRK11087 458817002294 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 458817002295 putative FMN binding site [chemical binding]; other site 458817002296 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 458817002297 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 458817002298 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 458817002299 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 458817002300 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458817002301 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458817002302 aromatic acid decarboxylase; Validated; Region: PRK05920 458817002303 Flavoprotein; Region: Flavoprotein; pfam02441 458817002304 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817002305 active site 458817002306 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 458817002307 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 458817002308 Walker A/P-loop; other site 458817002309 ATP binding site [chemical binding]; other site 458817002310 Q-loop/lid; other site 458817002311 ABC transporter signature motif; other site 458817002312 Walker B; other site 458817002313 D-loop; other site 458817002314 H-loop/switch region; other site 458817002315 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 458817002316 inner membrane transport permease; Provisional; Region: PRK15066 458817002317 pantoate--beta-alanine ligase; Region: panC; TIGR00018 458817002318 Pantoate-beta-alanine ligase; Region: PanC; cd00560 458817002319 active site 458817002320 ATP-binding site [chemical binding]; other site 458817002321 pantoate-binding site; other site 458817002322 HXXH motif; other site 458817002323 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 458817002324 oligomerization interface [polypeptide binding]; other site 458817002325 active site 458817002326 metal binding site [ion binding]; metal-binding site 458817002327 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 458817002328 catalytic center binding site [active] 458817002329 ATP binding site [chemical binding]; other site 458817002330 poly(A) polymerase; Region: pcnB; TIGR01942 458817002331 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 458817002332 active site 458817002333 NTP binding site [chemical binding]; other site 458817002334 metal binding triad [ion binding]; metal-binding site 458817002335 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 458817002336 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 458817002337 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 458817002338 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 458817002339 active site 458817002340 HIGH motif; other site 458817002341 nucleotide binding site [chemical binding]; other site 458817002342 active site 458817002343 KMSKS motif; other site 458817002344 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 458817002345 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 458817002346 aminopeptidase B; Provisional; Region: PRK05015 458817002347 Peptidase; Region: DUF3663; pfam12404 458817002348 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 458817002349 interface (dimer of trimers) [polypeptide binding]; other site 458817002350 Substrate-binding/catalytic site; other site 458817002351 Zn-binding sites [ion binding]; other site 458817002352 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817002353 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 458817002354 DNA binding site [nucleotide binding] 458817002355 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 458817002356 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002357 active site 458817002358 phosphorylation site [posttranslational modification] 458817002359 intermolecular recognition site; other site 458817002360 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 458817002361 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 458817002362 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 458817002363 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 458817002364 ATP binding site [chemical binding]; other site 458817002365 putative Mg++ binding site [ion binding]; other site 458817002366 helicase superfamily c-terminal domain; Region: HELICc; smart00490 458817002367 Helicase associated domain (HA2); Region: HA2; cl04503 458817002368 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 458817002369 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 458817002370 Transglycosylase; Region: Transgly; pfam00912 458817002371 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 458817002372 putative arabinose transporter; Provisional; Region: PRK03545 458817002373 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817002374 putative substrate translocation pore; other site 458817002375 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817002376 Coenzyme A binding pocket [chemical binding]; other site 458817002377 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 458817002378 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 458817002379 N-terminal plug; other site 458817002380 ligand-binding site [chemical binding]; other site 458817002381 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 458817002382 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 458817002383 amino acid carrier protein; Region: agcS; TIGR00835 458817002384 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 458817002385 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817002386 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 458817002387 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817002388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002389 active site 458817002390 phosphorylation site [posttranslational modification] 458817002391 intermolecular recognition site; other site 458817002392 dimerization interface [polypeptide binding]; other site 458817002393 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817002394 Walker A motif; other site 458817002395 ATP binding site [chemical binding]; other site 458817002396 Walker B motif; other site 458817002397 arginine finger; other site 458817002398 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817002399 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817002400 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 458817002401 substrate binding pocket [chemical binding]; other site 458817002402 membrane-bound complex binding site; other site 458817002403 hinge residues; other site 458817002404 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458817002405 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 458817002406 dimer interface [polypeptide binding]; other site 458817002407 phosphorylation site [posttranslational modification] 458817002408 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817002409 ATP binding site [chemical binding]; other site 458817002410 Mg2+ binding site [ion binding]; other site 458817002411 G-X-G motif; other site 458817002412 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 458817002413 heme-binding residues [chemical binding]; other site 458817002414 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 458817002415 L-aspartate oxidase; Provisional; Region: PRK06175 458817002416 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 458817002417 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 458817002418 ligand binding site [chemical binding]; other site 458817002419 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 458817002420 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 458817002421 Walker A/P-loop; other site 458817002422 ATP binding site [chemical binding]; other site 458817002423 Q-loop/lid; other site 458817002424 ABC transporter signature motif; other site 458817002425 Walker B; other site 458817002426 D-loop; other site 458817002427 H-loop/switch region; other site 458817002428 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 458817002429 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 458817002430 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 458817002431 TM-ABC transporter signature motif; other site 458817002432 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 458817002433 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 458817002434 TM-ABC transporter signature motif; other site 458817002435 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 458817002436 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 458817002437 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 458817002438 AMP binding site [chemical binding]; other site 458817002439 metal binding site [ion binding]; metal-binding site 458817002440 active site 458817002441 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 458817002442 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817002443 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 458817002444 two-component response regulator; Provisional; Region: PRK11173 458817002445 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002446 active site 458817002447 phosphorylation site [posttranslational modification] 458817002448 intermolecular recognition site; other site 458817002449 dimerization interface [polypeptide binding]; other site 458817002450 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 458817002451 DNA binding site [nucleotide binding] 458817002452 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 458817002453 aspartate kinase III; Validated; Region: PRK09084 458817002454 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 458817002455 nucleotide binding site [chemical binding]; other site 458817002456 substrate binding site [chemical binding]; other site 458817002457 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817002458 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 458817002459 dimer interface [polypeptide binding]; other site 458817002460 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 458817002461 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 458817002462 active site 458817002463 Zn binding site [ion binding]; other site 458817002464 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 458817002465 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 458817002466 putative DNA binding site [nucleotide binding]; other site 458817002467 putative Zn2+ binding site [ion binding]; other site 458817002468 AsnC family; Region: AsnC_trans_reg; pfam01037 458817002469 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 458817002470 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 458817002471 active site 458817002472 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 458817002473 S-adenosylmethionine binding site [chemical binding]; other site 458817002474 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 458817002475 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 458817002476 putative ligand binding site [chemical binding]; other site 458817002477 putative NAD binding site [chemical binding]; other site 458817002478 catalytic site [active] 458817002479 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 458817002480 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 458817002481 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 458817002482 peroxiredoxin; Region: AhpC; TIGR03137 458817002483 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 458817002484 dimer interface [polypeptide binding]; other site 458817002485 decamer (pentamer of dimers) interface [polypeptide binding]; other site 458817002486 catalytic triad [active] 458817002487 peroxidatic and resolving cysteines [active] 458817002488 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 458817002489 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 458817002490 catalytic residue [active] 458817002491 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 458817002492 catalytic residues [active] 458817002493 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458817002494 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817002495 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817002496 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817002497 metal binding site [ion binding]; metal-binding site 458817002498 active site 458817002499 I-site; other site 458817002500 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817002501 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 458817002502 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 458817002503 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 458817002504 Chromate transporter; Region: Chromate_transp; pfam02417 458817002505 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 458817002506 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 458817002507 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817002508 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 458817002509 4Fe-4S binding domain; Region: Fer4; pfam00037 458817002510 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 458817002511 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 458817002512 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 458817002513 [4Fe-4S] binding site [ion binding]; other site 458817002514 molybdopterin cofactor binding site; other site 458817002515 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 458817002516 molybdopterin cofactor binding site; other site 458817002517 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 458817002518 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817002519 Ion channel; Region: Ion_trans_2; pfam07885 458817002520 This domain is found in peptide chain release factors; Region: PCRF; smart00937 458817002521 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 458817002522 RF-1 domain; Region: RF-1; pfam00472 458817002523 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 458817002524 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 458817002525 dimer interface [polypeptide binding]; other site 458817002526 putative anticodon binding site; other site 458817002527 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 458817002528 motif 1; other site 458817002529 active site 458817002530 motif 2; other site 458817002531 motif 3; other site 458817002532 PAS domain; Region: PAS_9; pfam13426 458817002533 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 458817002534 PAS domain; Region: PAS_9; pfam13426 458817002535 putative active site [active] 458817002536 heme pocket [chemical binding]; other site 458817002537 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817002538 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817002539 metal binding site [ion binding]; metal-binding site 458817002540 active site 458817002541 I-site; other site 458817002542 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 458817002543 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 458817002544 pseudouridine synthase; Region: TIGR00093 458817002545 active site 458817002546 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 458817002547 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 458817002548 active site 458817002549 trimer interface [polypeptide binding]; other site 458817002550 allosteric site; other site 458817002551 active site lid [active] 458817002552 hexamer (dimer of trimers) interface [polypeptide binding]; other site 458817002553 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 458817002554 putative FMN binding site [chemical binding]; other site 458817002555 putative dimer interface [polypeptide binding]; other site 458817002556 Cupin domain; Region: Cupin_2; cl17218 458817002557 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 458817002558 Peptidase family U32; Region: Peptidase_U32; pfam01136 458817002559 Collagenase; Region: DUF3656; pfam12392 458817002560 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 458817002561 pentamer interface [polypeptide binding]; other site 458817002562 dodecaamer interface [polypeptide binding]; other site 458817002563 Fe-S metabolism associated domain; Region: SufE; cl00951 458817002564 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 458817002565 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 458817002566 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817002567 catalytic residue [active] 458817002568 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 458817002569 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 458817002570 active site 458817002571 catalytic tetrad [active] 458817002572 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 458817002573 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 458817002574 putative DNA binding site [nucleotide binding]; other site 458817002575 putative Zn2+ binding site [ion binding]; other site 458817002576 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 458817002577 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817002578 Coenzyme A binding pocket [chemical binding]; other site 458817002579 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 458817002580 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 458817002581 serine transporter; Region: stp; TIGR00814 458817002582 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 458817002583 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 458817002584 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 458817002585 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 458817002586 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817002587 Coenzyme A binding pocket [chemical binding]; other site 458817002588 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 458817002589 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817002590 META domain; Region: META; pfam03724 458817002591 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817002592 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817002593 I-site; other site 458817002594 active site 458817002595 metal binding site [ion binding]; metal-binding site 458817002596 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 458817002597 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 458817002598 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 458817002599 Restriction endonuclease; Region: Mrr_cat; pfam04471 458817002600 Domain of unknown function (DUF955); Region: DUF955; pfam06114 458817002601 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817002602 Coenzyme A binding pocket [chemical binding]; other site 458817002603 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 458817002604 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458817002605 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 458817002606 DNA binding residues [nucleotide binding] 458817002607 dimerization interface [polypeptide binding]; other site 458817002608 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 458817002609 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 458817002610 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 458817002611 PYR/PP interface [polypeptide binding]; other site 458817002612 dimer interface [polypeptide binding]; other site 458817002613 TPP binding site [chemical binding]; other site 458817002614 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 458817002615 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 458817002616 TPP-binding site [chemical binding]; other site 458817002617 S-adenosylmethionine synthetase; Validated; Region: PRK05250 458817002618 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 458817002619 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 458817002620 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 458817002621 transketolase; Reviewed; Region: PRK12753 458817002622 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 458817002623 TPP-binding site [chemical binding]; other site 458817002624 dimer interface [polypeptide binding]; other site 458817002625 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 458817002626 PYR/PP interface [polypeptide binding]; other site 458817002627 dimer interface [polypeptide binding]; other site 458817002628 TPP binding site [chemical binding]; other site 458817002629 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458817002630 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 458817002631 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 458817002632 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 458817002633 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 458817002634 Phosphoglycerate kinase; Region: PGK; pfam00162 458817002635 substrate binding site [chemical binding]; other site 458817002636 hinge regions; other site 458817002637 ADP binding site [chemical binding]; other site 458817002638 catalytic site [active] 458817002639 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 458817002640 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 458817002641 intersubunit interface [polypeptide binding]; other site 458817002642 active site 458817002643 zinc binding site [ion binding]; other site 458817002644 Na+ binding site [ion binding]; other site 458817002645 Protein of unknown function, DUF481; Region: DUF481; pfam04338 458817002646 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 458817002647 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 458817002648 PAS domain; Region: PAS_9; pfam13426 458817002649 putative active site [active] 458817002650 heme pocket [chemical binding]; other site 458817002651 PAS domain; Region: PAS_9; pfam13426 458817002652 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817002653 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817002654 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 458817002655 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 458817002656 FeS/SAM binding site; other site 458817002657 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817002658 Protein export membrane protein; Region: SecD_SecF; cl14618 458817002659 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817002660 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817002661 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 458817002662 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458817002663 ATP binding site [chemical binding]; other site 458817002664 Mg++ binding site [ion binding]; other site 458817002665 motif III; other site 458817002666 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 458817002667 nucleotide binding region [chemical binding]; other site 458817002668 ATP-binding site [chemical binding]; other site 458817002669 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 458817002670 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 458817002671 S-adenosylmethionine binding site [chemical binding]; other site 458817002672 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 458817002673 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 458817002674 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 458817002675 active site 458817002676 Int/Topo IB signature motif; other site 458817002677 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 458817002678 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 458817002679 dimerization domain [polypeptide binding]; other site 458817002680 dimer interface [polypeptide binding]; other site 458817002681 catalytic residues [active] 458817002682 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 458817002683 DHH family; Region: DHH; pfam01368 458817002684 DHHA1 domain; Region: DHHA1; pfam02272 458817002685 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 458817002686 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 458817002687 putative DNA binding site [nucleotide binding]; other site 458817002688 putative Zn2+ binding site [ion binding]; other site 458817002689 AsnC family; Region: AsnC_trans_reg; pfam01037 458817002690 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 458817002691 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 458817002692 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 458817002693 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 458817002694 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 458817002695 hydroxyglutarate oxidase; Provisional; Region: PRK11728 458817002696 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 458817002697 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 458817002698 conserved cys residue [active] 458817002699 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817002700 LysE type translocator; Region: LysE; cl00565 458817002701 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 458817002702 tetramer (dimer of dimers) interface [polypeptide binding]; other site 458817002703 active site 458817002704 dimer interface [polypeptide binding]; other site 458817002705 Protein of unknown function (DUF808); Region: DUF808; pfam05661 458817002706 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 458817002707 putative catalytic site [active] 458817002708 putative metal binding site [ion binding]; other site 458817002709 putative phosphate binding site [ion binding]; other site 458817002710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 458817002711 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 458817002712 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 458817002713 putative active site [active] 458817002714 putative metal binding site [ion binding]; other site 458817002715 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 458817002716 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817002717 active site 458817002718 Phage shock protein B; Region: PspB; cl05946 458817002719 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 458817002720 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 458817002721 Zn binding site [ion binding]; other site 458817002722 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 458817002723 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 458817002724 SlyX; Region: SlyX; pfam04102 458817002725 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 458817002726 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 458817002727 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 458817002728 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 458817002729 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 458817002730 active site 458817002731 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 458817002732 transcriptional regulator NarL; Provisional; Region: PRK10651 458817002733 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002734 active site 458817002735 phosphorylation site [posttranslational modification] 458817002736 intermolecular recognition site; other site 458817002737 dimerization interface [polypeptide binding]; other site 458817002738 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 458817002739 DNA binding residues [nucleotide binding] 458817002740 dimerization interface [polypeptide binding]; other site 458817002741 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 458817002742 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 458817002743 HAMP domain; Region: HAMP; pfam00672 458817002744 dimerization interface [polypeptide binding]; other site 458817002745 Histidine kinase; Region: HisKA_3; pfam07730 458817002746 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817002747 ATP binding site [chemical binding]; other site 458817002748 Mg2+ binding site [ion binding]; other site 458817002749 G-X-G motif; other site 458817002750 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 458817002751 Isochorismatase family; Region: Isochorismatase; pfam00857 458817002752 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 458817002753 catalytic triad [active] 458817002754 dimer interface [polypeptide binding]; other site 458817002755 conserved cis-peptide bond; other site 458817002756 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 458817002757 Nitrogen regulatory protein P-II; Region: P-II; smart00938 458817002758 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 458817002759 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 458817002760 binding surface 458817002761 TPR motif; other site 458817002762 Tetratricopeptide repeat; Region: TPR_16; pfam13432 458817002763 TPR repeat; Region: TPR_11; pfam13414 458817002764 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 458817002765 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 458817002766 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458817002767 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 458817002768 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817002769 Walker A/P-loop; other site 458817002770 ATP binding site [chemical binding]; other site 458817002771 Q-loop/lid; other site 458817002772 ABC transporter signature motif; other site 458817002773 Walker B; other site 458817002774 D-loop; other site 458817002775 H-loop/switch region; other site 458817002776 ferredoxin-NADP reductase; Provisional; Region: PRK10926 458817002777 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 458817002778 FAD binding pocket [chemical binding]; other site 458817002779 FAD binding motif [chemical binding]; other site 458817002780 phosphate binding motif [ion binding]; other site 458817002781 beta-alpha-beta structure motif; other site 458817002782 NAD binding pocket [chemical binding]; other site 458817002783 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 458817002784 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 458817002785 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 458817002786 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817002787 dimer interface [polypeptide binding]; other site 458817002788 conserved gate region; other site 458817002789 putative PBP binding loops; other site 458817002790 ABC-ATPase subunit interface; other site 458817002791 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817002792 dimer interface [polypeptide binding]; other site 458817002793 conserved gate region; other site 458817002794 putative PBP binding loops; other site 458817002795 ABC-ATPase subunit interface; other site 458817002796 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 458817002797 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 458817002798 Walker A/P-loop; other site 458817002799 ATP binding site [chemical binding]; other site 458817002800 Q-loop/lid; other site 458817002801 ABC transporter signature motif; other site 458817002802 Walker B; other site 458817002803 D-loop; other site 458817002804 H-loop/switch region; other site 458817002805 TOBE domain; Region: TOBE_2; pfam08402 458817002806 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 458817002807 Cupin domain; Region: Cupin_2; cl17218 458817002808 arginine repressor; Provisional; Region: PRK05066 458817002809 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 458817002810 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 458817002811 malate dehydrogenase; Provisional; Region: PRK05086 458817002812 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 458817002813 NAD binding site [chemical binding]; other site 458817002814 dimerization interface [polypeptide binding]; other site 458817002815 Substrate binding site [chemical binding]; other site 458817002816 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 458817002817 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 458817002818 substrate binding pocket [chemical binding]; other site 458817002819 chain length determination region; other site 458817002820 substrate-Mg2+ binding site; other site 458817002821 catalytic residues [active] 458817002822 aspartate-rich region 1; other site 458817002823 active site lid residues [active] 458817002824 aspartate-rich region 2; other site 458817002825 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 458817002826 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 458817002827 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 458817002828 GTPase CgtA; Reviewed; Region: obgE; PRK12298 458817002829 GTP1/OBG; Region: GTP1_OBG; pfam01018 458817002830 Obg GTPase; Region: Obg; cd01898 458817002831 G1 box; other site 458817002832 GTP/Mg2+ binding site [chemical binding]; other site 458817002833 Switch I region; other site 458817002834 G2 box; other site 458817002835 G3 box; other site 458817002836 Switch II region; other site 458817002837 G4 box; other site 458817002838 G5 box; other site 458817002839 Uncharacterized conserved protein [Function unknown]; Region: COG2966 458817002840 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 458817002841 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 458817002842 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 458817002843 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 458817002844 NADP+ binding site [chemical binding]; other site 458817002845 folate binding site [chemical binding]; other site 458817002846 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 458817002847 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 458817002848 dimerization interface [polypeptide binding]; other site 458817002849 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817002850 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817002851 dimer interface [polypeptide binding]; other site 458817002852 putative CheW interface [polypeptide binding]; other site 458817002853 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 458817002854 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 458817002855 active site 458817002856 metal binding site [ion binding]; metal-binding site 458817002857 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 458817002858 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 458817002859 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 458817002860 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 458817002861 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 458817002862 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 458817002863 SurA N-terminal domain; Region: SurA_N; pfam09312 458817002864 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 458817002865 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 458817002866 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 458817002867 OstA-like protein; Region: OstA; cl00844 458817002868 Organic solvent tolerance protein; Region: OstA_C; pfam04453 458817002869 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 458817002870 Phosphotransferase enzyme family; Region: APH; pfam01636 458817002871 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 458817002872 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 458817002873 Substrate binding site; other site 458817002874 metal-binding site 458817002875 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 458817002876 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 458817002877 putative metal binding site [ion binding]; other site 458817002878 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 458817002879 HSP70 interaction site [polypeptide binding]; other site 458817002880 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 458817002881 glycerate dehydrogenase; Provisional; Region: PRK06487 458817002882 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 458817002883 putative ligand binding site [chemical binding]; other site 458817002884 putative NAD binding site [chemical binding]; other site 458817002885 catalytic site [active] 458817002886 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 458817002887 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 458817002888 ATP-grasp domain; Region: ATP-grasp; pfam02222 458817002889 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 458817002890 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817002891 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817002892 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817002893 Ycf46; Provisional; Region: ycf46; CHL00195 458817002894 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817002895 Walker A motif; other site 458817002896 ATP binding site [chemical binding]; other site 458817002897 Walker B motif; other site 458817002898 arginine finger; other site 458817002899 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 458817002900 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 458817002901 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 458817002902 dimer interface [polypeptide binding]; other site 458817002903 phosphorylation site [posttranslational modification] 458817002904 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817002905 ATP binding site [chemical binding]; other site 458817002906 Mg2+ binding site [ion binding]; other site 458817002907 G-X-G motif; other site 458817002908 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 458817002909 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817002910 active site 458817002911 phosphorylation site [posttranslational modification] 458817002912 intermolecular recognition site; other site 458817002913 dimerization interface [polypeptide binding]; other site 458817002914 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 458817002915 DNA binding site [nucleotide binding] 458817002916 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 458817002917 MltA-interacting protein MipA; Region: MipA; cl01504 458817002918 putative acetyltransferase YhhY; Provisional; Region: PRK10140 458817002919 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817002920 Coenzyme A binding pocket [chemical binding]; other site 458817002921 YcxB-like protein; Region: YcxB; pfam14317 458817002922 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 458817002923 universal stress protein UspE; Provisional; Region: PRK11175 458817002924 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 458817002925 Ligand Binding Site [chemical binding]; other site 458817002926 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 458817002927 Ligand Binding Site [chemical binding]; other site 458817002928 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458817002929 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 458817002930 active site 458817002931 metal binding site [ion binding]; metal-binding site 458817002932 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 458817002933 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 458817002934 Predicted transcriptional regulator [Transcription]; Region: COG2345 458817002935 HTH domain; Region: HTH_11; pfam08279 458817002936 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 458817002937 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 458817002938 active site 458817002939 uracil binding [chemical binding]; other site 458817002940 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 458817002941 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817002942 putative substrate translocation pore; other site 458817002943 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817002944 LrgB-like family; Region: LrgB; pfam04172 458817002945 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 458817002946 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817002947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817002948 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 458817002949 dimerization interface [polypeptide binding]; other site 458817002950 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 458817002951 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 458817002952 AMMECR1; Region: AMMECR1; pfam01871 458817002953 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 458817002954 putative ligand binding pocket/active site [active] 458817002955 putative metal binding site [ion binding]; other site 458817002956 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 458817002957 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 458817002958 FeS/SAM binding site; other site 458817002959 Peptidase M60-like family; Region: M60-like; pfam13402 458817002960 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 458817002961 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817002962 dimer interface [polypeptide binding]; other site 458817002963 putative CheW interface [polypeptide binding]; other site 458817002964 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 458817002965 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 458817002966 HIGH motif; other site 458817002967 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 458817002968 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 458817002969 active site 458817002970 KMSKS motif; other site 458817002971 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 458817002972 tRNA binding surface [nucleotide binding]; other site 458817002973 anticodon binding site; other site 458817002974 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 458817002975 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 458817002976 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 458817002977 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 458817002978 ATP binding site [chemical binding]; other site 458817002979 putative Mg++ binding site [ion binding]; other site 458817002980 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 458817002981 nucleotide binding region [chemical binding]; other site 458817002982 ATP-binding site [chemical binding]; other site 458817002983 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 458817002984 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 458817002985 FMN binding site [chemical binding]; other site 458817002986 active site 458817002987 substrate binding site [chemical binding]; other site 458817002988 catalytic residue [active] 458817002989 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817002990 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817002991 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 458817002992 putative effector binding pocket; other site 458817002993 dimerization interface [polypeptide binding]; other site 458817002994 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 458817002995 putative catalytic residues [active] 458817002996 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 458817002997 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 458817002998 Domain of unknown function DUF21; Region: DUF21; pfam01595 458817002999 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 458817003000 Transporter associated domain; Region: CorC_HlyC; smart01091 458817003001 multifunctional aminopeptidase A; Provisional; Region: PRK00913 458817003002 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 458817003003 interface (dimer of trimers) [polypeptide binding]; other site 458817003004 Substrate-binding/catalytic site; other site 458817003005 Zn-binding sites [ion binding]; other site 458817003006 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 458817003007 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 458817003008 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 458817003009 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 458817003010 RDD family; Region: RDD; pfam06271 458817003011 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 458817003012 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458817003013 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817003014 Coenzyme A binding pocket [chemical binding]; other site 458817003015 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 458817003016 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 458817003017 active site 458817003018 Zn binding site [ion binding]; other site 458817003019 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 458817003020 active site 458817003021 catalytic residues [active] 458817003022 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 458817003023 PA/protease or protease-like domain interface [polypeptide binding]; other site 458817003024 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 458817003025 catalytic residues [active] 458817003026 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 458817003027 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 458817003028 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 458817003029 ATP binding site [chemical binding]; other site 458817003030 Mg++ binding site [ion binding]; other site 458817003031 motif III; other site 458817003032 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 458817003033 nucleotide binding region [chemical binding]; other site 458817003034 ATP-binding site [chemical binding]; other site 458817003035 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 458817003036 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 458817003037 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 458817003038 active site 458817003039 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 458817003040 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 458817003041 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 458817003042 active site 458817003043 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 458817003044 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 458817003045 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 458817003046 outer membrane protein A; Reviewed; Region: PRK10808 458817003047 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 458817003048 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817003049 ligand binding site [chemical binding]; other site 458817003050 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 458817003051 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 458817003052 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 458817003053 DNA-binding site [nucleotide binding]; DNA binding site 458817003054 RNA-binding motif; other site 458817003055 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 458817003056 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 458817003057 dimerization interface [polypeptide binding]; other site 458817003058 putative DNA binding site [nucleotide binding]; other site 458817003059 putative Zn2+ binding site [ion binding]; other site 458817003060 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 458817003061 CoenzymeA binding site [chemical binding]; other site 458817003062 subunit interaction site [polypeptide binding]; other site 458817003063 PHB binding site; other site 458817003064 Domain of unknown function (DUF368); Region: DUF368; pfam04018 458817003065 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 458817003066 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 458817003067 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 458817003068 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 458817003069 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 458817003070 tetrameric interface [polypeptide binding]; other site 458817003071 NAD binding site [chemical binding]; other site 458817003072 catalytic residues [active] 458817003073 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 458817003074 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 458817003075 inhibitor-cofactor binding pocket; inhibition site 458817003076 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817003077 catalytic residue [active] 458817003078 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 458817003079 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 458817003080 NAD(P) binding site [chemical binding]; other site 458817003081 catalytic residues [active] 458817003082 Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator; Region: HTH_Cfa; cd04789 458817003083 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 458817003084 DNA binding residues [nucleotide binding] 458817003085 putative dimer interface [polypeptide binding]; other site 458817003086 Methyltransferase domain; Region: Methyltransf_31; pfam13847 458817003087 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 458817003088 S-adenosylmethionine binding site [chemical binding]; other site 458817003089 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458817003090 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817003091 Coenzyme A binding pocket [chemical binding]; other site 458817003092 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 458817003093 putative active site [active] 458817003094 putative metal binding residues [ion binding]; other site 458817003095 signature motif; other site 458817003096 putative triphosphate binding site [ion binding]; other site 458817003097 dimer interface [polypeptide binding]; other site 458817003098 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 458817003099 aspartate racemase; Region: asp_race; TIGR00035 458817003100 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 458817003101 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 458817003102 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 458817003103 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 458817003104 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 458817003105 non-specific DNA binding site [nucleotide binding]; other site 458817003106 salt bridge; other site 458817003107 sequence-specific DNA binding site [nucleotide binding]; other site 458817003108 Cupin domain; Region: Cupin_2; pfam07883 458817003109 Peptidase C26; Region: Peptidase_C26; pfam07722 458817003110 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 458817003111 catalytic triad [active] 458817003112 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 458817003113 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 458817003114 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 458817003115 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 458817003116 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 458817003117 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817003118 Walker A/P-loop; other site 458817003119 ATP binding site [chemical binding]; other site 458817003120 Q-loop/lid; other site 458817003121 ABC transporter signature motif; other site 458817003122 Walker B; other site 458817003123 D-loop; other site 458817003124 H-loop/switch region; other site 458817003125 TOBE domain; Region: TOBE_2; pfam08402 458817003126 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 458817003127 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817003128 dimer interface [polypeptide binding]; other site 458817003129 conserved gate region; other site 458817003130 putative PBP binding loops; other site 458817003131 ABC-ATPase subunit interface; other site 458817003132 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 458817003133 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817003134 dimer interface [polypeptide binding]; other site 458817003135 conserved gate region; other site 458817003136 putative PBP binding loops; other site 458817003137 ABC-ATPase subunit interface; other site 458817003138 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 458817003139 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 458817003140 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 458817003141 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 458817003142 tetramerization interface [polypeptide binding]; other site 458817003143 NAD(P) binding site [chemical binding]; other site 458817003144 catalytic residues [active] 458817003145 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 458817003146 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 458817003147 inhibitor-cofactor binding pocket; inhibition site 458817003148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817003149 catalytic residue [active] 458817003150 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 458817003151 Ligand Binding Site [chemical binding]; other site 458817003152 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 458817003153 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 458817003154 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 458817003155 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 458817003156 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817003157 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 458817003158 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 458817003159 DNA binding residues [nucleotide binding] 458817003160 DNA primase; Validated; Region: dnaG; PRK05667 458817003161 CHC2 zinc finger; Region: zf-CHC2; pfam01807 458817003162 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 458817003163 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 458817003164 active site 458817003165 metal binding site [ion binding]; metal-binding site 458817003166 interdomain interaction site; other site 458817003167 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 458817003168 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 458817003169 Yqey-like protein; Region: YqeY; pfam09424 458817003170 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 458817003171 UGMP family protein; Validated; Region: PRK09604 458817003172 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 458817003173 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 458817003174 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 458817003175 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 458817003176 homooctamer interface [polypeptide binding]; other site 458817003177 active site 458817003178 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 458817003179 catalytic center binding site [active] 458817003180 ATP binding site [chemical binding]; other site 458817003181 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 458817003182 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 458817003183 Methyltransferase domain; Region: Methyltransf_11; pfam08241 458817003184 L,D-transpeptidase; Provisional; Region: PRK10190 458817003185 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458817003186 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 458817003187 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 458817003188 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 458817003189 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 458817003190 active site 458817003191 NTP binding site [chemical binding]; other site 458817003192 metal binding triad [ion binding]; metal-binding site 458817003193 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 458817003194 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817003195 Zn2+ binding site [ion binding]; other site 458817003196 Mg2+ binding site [ion binding]; other site 458817003197 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 458817003198 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817003199 Walker A motif; other site 458817003200 ATP binding site [chemical binding]; other site 458817003201 Walker B motif; other site 458817003202 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 458817003203 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 458817003204 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 458817003205 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 458817003206 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 458817003207 inhibitor-cofactor binding pocket; inhibition site 458817003208 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817003209 catalytic residue [active] 458817003210 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 458817003211 ApbE family; Region: ApbE; pfam02424 458817003212 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 458817003213 Cytochrome c553 [Energy production and conversion]; Region: COG2863 458817003214 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 458817003215 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 458817003216 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 458817003217 Moco binding site; other site 458817003218 metal coordination site [ion binding]; other site 458817003219 dimerization interface [polypeptide binding]; other site 458817003220 Cytochrome c; Region: Cytochrom_C; cl11414 458817003221 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 458817003222 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 458817003223 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 458817003224 Cl- selectivity filter; other site 458817003225 Cl- binding residues [ion binding]; other site 458817003226 pore gating glutamate residue; other site 458817003227 dimer interface [polypeptide binding]; other site 458817003228 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 458817003229 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 458817003230 Alkaline phosphatase homologues; Region: alkPPc; smart00098 458817003231 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 458817003232 active site 458817003233 dimer interface [polypeptide binding]; other site 458817003234 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 458817003235 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817003236 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 458817003237 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 458817003238 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 458817003239 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 458817003240 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817003241 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 458817003242 DNA binding site [nucleotide binding] 458817003243 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 458817003244 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 458817003245 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 458817003246 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 458817003247 putative peptidase; Provisional; Region: PRK11649 458817003248 Peptidase family M23; Region: Peptidase_M23; pfam01551 458817003249 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 458817003250 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 458817003251 active site 458817003252 HIGH motif; other site 458817003253 dimer interface [polypeptide binding]; other site 458817003254 KMSKS motif; other site 458817003255 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 458817003256 RNA binding surface [nucleotide binding]; other site 458817003257 SnoaL-like domain; Region: SnoaL_2; pfam12680 458817003258 Predicted membrane protein [Function unknown]; Region: COG2860 458817003259 UPF0126 domain; Region: UPF0126; pfam03458 458817003260 UPF0126 domain; Region: UPF0126; pfam03458 458817003261 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 458817003262 Cobalamin biosynthesis protein CobD/CbiB [Coenzyme metabolism]; Region: CbiB; COG1270 458817003263 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 458817003264 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 458817003265 CHASE3 domain; Region: CHASE3; pfam05227 458817003266 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817003267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817003268 metal binding site [ion binding]; metal-binding site 458817003269 active site 458817003270 I-site; other site 458817003271 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817003272 Coenzyme A binding pocket [chemical binding]; other site 458817003273 MarR family; Region: MarR; pfam01047 458817003274 MarR family; Region: MarR_2; cl17246 458817003275 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 458817003276 BCCT family transporter; Region: BCCT; cl00569 458817003277 choline dehydrogenase; Validated; Region: PRK02106 458817003278 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 458817003279 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 458817003280 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 458817003281 tetrameric interface [polypeptide binding]; other site 458817003282 NAD binding site [chemical binding]; other site 458817003283 catalytic residues [active] 458817003284 transcriptional regulator BetI; Validated; Region: PRK00767 458817003285 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817003286 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 458817003287 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 458817003288 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 458817003289 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 458817003290 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 458817003291 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 458817003292 active site 458817003293 dimer interface [polypeptide binding]; other site 458817003294 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 458817003295 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 458817003296 active site 458817003297 FMN binding site [chemical binding]; other site 458817003298 substrate binding site [chemical binding]; other site 458817003299 3Fe-4S cluster binding site [ion binding]; other site 458817003300 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 458817003301 domain interface; other site 458817003302 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 458817003303 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 458817003304 FeS/SAM binding site; other site 458817003305 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 458817003306 putative binding surface; other site 458817003307 active site 458817003308 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817003309 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817003310 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 458817003311 dimerization interface [polypeptide binding]; other site 458817003312 cyclase homology domain; Region: CHD; cd07302 458817003313 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 458817003314 nucleotidyl binding site; other site 458817003315 metal binding site [ion binding]; metal-binding site 458817003316 dimer interface [polypeptide binding]; other site 458817003317 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 458817003318 putative DNA-binding cleft [nucleotide binding]; other site 458817003319 putative DNA clevage site; other site 458817003320 molecular lever; other site 458817003321 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 458817003322 putative active site [active] 458817003323 Ap4A binding site [chemical binding]; other site 458817003324 nudix motif; other site 458817003325 putative metal binding site [ion binding]; other site 458817003326 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 458817003327 GAF domain; Region: GAF; pfam01590 458817003328 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 458817003329 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 458817003330 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 458817003331 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458817003332 thymidylate synthase; Reviewed; Region: thyA; PRK01827 458817003333 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 458817003334 dimerization interface [polypeptide binding]; other site 458817003335 active site 458817003336 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 458817003337 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 458817003338 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817003339 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 458817003340 dimerization interface [polypeptide binding]; other site 458817003341 Uncharacterized conserved protein [Function unknown]; Region: COG2938 458817003342 L-aspartate oxidase; Provisional; Region: PRK09077 458817003343 L-aspartate oxidase; Provisional; Region: PRK06175 458817003344 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 458817003345 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 458817003346 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817003347 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 458817003348 DNA binding residues [nucleotide binding] 458817003349 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 458817003350 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 458817003351 anti-sigma E factor; Provisional; Region: rseB; PRK09455 458817003352 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 458817003353 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 458817003354 GTP-binding protein LepA; Provisional; Region: PRK05433 458817003355 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 458817003356 G1 box; other site 458817003357 putative GEF interaction site [polypeptide binding]; other site 458817003358 GTP/Mg2+ binding site [chemical binding]; other site 458817003359 Switch I region; other site 458817003360 G2 box; other site 458817003361 G3 box; other site 458817003362 Switch II region; other site 458817003363 G4 box; other site 458817003364 G5 box; other site 458817003365 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 458817003366 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 458817003367 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 458817003368 signal peptidase I; Provisional; Region: PRK10861 458817003369 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 458817003370 Catalytic site [active] 458817003371 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 458817003372 ribonuclease III; Reviewed; Region: rnc; PRK00102 458817003373 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 458817003374 dimerization interface [polypeptide binding]; other site 458817003375 active site 458817003376 metal binding site [ion binding]; metal-binding site 458817003377 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 458817003378 dsRNA binding site [nucleotide binding]; other site 458817003379 GTPase Era; Reviewed; Region: era; PRK00089 458817003380 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 458817003381 G1 box; other site 458817003382 GTP/Mg2+ binding site [chemical binding]; other site 458817003383 Switch I region; other site 458817003384 G2 box; other site 458817003385 Switch II region; other site 458817003386 G3 box; other site 458817003387 G4 box; other site 458817003388 G5 box; other site 458817003389 KH domain; Region: KH_2; pfam07650 458817003390 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 458817003391 Recombination protein O N terminal; Region: RecO_N; pfam11967 458817003392 Recombination protein O C terminal; Region: RecO_C; pfam02565 458817003393 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 458817003394 active site 458817003395 hydrophilic channel; other site 458817003396 dimerization interface [polypeptide binding]; other site 458817003397 catalytic residues [active] 458817003398 active site lid [active] 458817003399 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 458817003400 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 458817003401 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 458817003402 Coenzyme A binding pocket [chemical binding]; other site 458817003403 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 458817003404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 458817003405 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 458817003406 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 458817003407 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 458817003408 Protein of unknown function (DUF962); Region: DUF962; cl01879 458817003409 Domain of unknown function DUF21; Region: DUF21; pfam01595 458817003410 hypothetical protein; Provisional; Region: PRK11573 458817003411 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 458817003412 Transporter associated domain; Region: CorC_HlyC; smart01091 458817003413 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 458817003414 signal recognition particle protein; Provisional; Region: PRK10867 458817003415 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 458817003416 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 458817003417 P loop; other site 458817003418 GTP binding site [chemical binding]; other site 458817003419 Signal peptide binding domain; Region: SRP_SPB; pfam02978 458817003420 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 458817003421 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 458817003422 RimM N-terminal domain; Region: RimM; pfam01782 458817003423 PRC-barrel domain; Region: PRC; pfam05239 458817003424 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 458817003425 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 458817003426 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 458817003427 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 458817003428 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 458817003429 Chorismate mutase type II; Region: CM_2; cl00693 458817003430 prephenate dehydrogenase; Validated; Region: PRK08507 458817003431 hybrid cluster protein; Provisional; Region: PRK05290 458817003432 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 458817003433 ACS interaction site; other site 458817003434 CODH interaction site; other site 458817003435 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 458817003436 hybrid metal cluster; other site 458817003437 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 458817003438 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 458817003439 FAD binding pocket [chemical binding]; other site 458817003440 FAD binding motif [chemical binding]; other site 458817003441 phosphate binding motif [ion binding]; other site 458817003442 beta-alpha-beta structure motif; other site 458817003443 NAD binding pocket [chemical binding]; other site 458817003444 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 458817003445 catalytic loop [active] 458817003446 iron binding site [ion binding]; other site 458817003447 Predicted membrane protein [Function unknown]; Region: COG3671 458817003448 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 458817003449 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 458817003450 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 458817003451 Prephenate dehydratase; Region: PDT; pfam00800 458817003452 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 458817003453 putative L-Phe binding site [chemical binding]; other site 458817003454 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 458817003455 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 458817003456 30S subunit binding site; other site 458817003457 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 458817003458 Cytochrome C' Region: Cytochrom_C_2; pfam01322 458817003459 Trp repressor protein; Region: Trp_repressor; cl17266 458817003460 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 458817003461 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 458817003462 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 458817003463 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 458817003464 putative catalytic residues [active] 458817003465 putative nucleotide binding site [chemical binding]; other site 458817003466 putative aspartate binding site [chemical binding]; other site 458817003467 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 458817003468 dimer interface [polypeptide binding]; other site 458817003469 putative threonine allosteric regulatory site; other site 458817003470 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 458817003471 putative threonine allosteric regulatory site; other site 458817003472 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 458817003473 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 458817003474 homoserine kinase; Provisional; Region: PRK01212 458817003475 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 458817003476 threonine synthase; Validated; Region: PRK09225 458817003477 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 458817003478 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817003479 catalytic residue [active] 458817003480 endonuclease IV; Provisional; Region: PRK01060 458817003481 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 458817003482 DNA interaction; other site 458817003483 Metal-binding active site; metal-binding site 458817003484 AP (apurinic/apyrimidinic) site pocket; other site 458817003485 Hemerythrin-like domain; Region: Hr-like; cd12108 458817003486 Fe binding site [ion binding]; other site 458817003487 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 458817003488 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 458817003489 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 458817003490 active site 458817003491 dimer interface [polypeptide binding]; other site 458817003492 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 458817003493 dimer interface [polypeptide binding]; other site 458817003494 active site 458817003495 transaldolase-like protein; Provisional; Region: PTZ00411 458817003496 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 458817003497 active site 458817003498 dimer interface [polypeptide binding]; other site 458817003499 catalytic residue [active] 458817003500 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 458817003501 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 458817003502 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817003503 ligand binding site [chemical binding]; other site 458817003504 putative phosphoketolase; Provisional; Region: PRK05261 458817003505 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 458817003506 TPP-binding site; other site 458817003507 XFP C-terminal domain; Region: XFP_C; pfam09363 458817003508 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 458817003509 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 458817003510 hypothetical protein; Validated; Region: PRK02101 458817003511 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 458817003512 dimerization interface [polypeptide binding]; other site 458817003513 putative DNA binding site [nucleotide binding]; other site 458817003514 putative Zn2+ binding site [ion binding]; other site 458817003515 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 458817003516 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 458817003517 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 458817003518 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 458817003519 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 458817003520 active site 458817003521 Riboflavin kinase; Region: Flavokinase; smart00904 458817003522 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 458817003523 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458817003524 active site 458817003525 HIGH motif; other site 458817003526 nucleotide binding site [chemical binding]; other site 458817003527 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 458817003528 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 458817003529 active site 458817003530 KMSKS motif; other site 458817003531 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 458817003532 tRNA binding surface [nucleotide binding]; other site 458817003533 anticodon binding site; other site 458817003534 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 458817003535 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 458817003536 lipoprotein signal peptidase; Provisional; Region: PRK14787 458817003537 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 458817003538 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 458817003539 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 458817003540 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 458817003541 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 458817003542 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 458817003543 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 458817003544 PilX N-terminal; Region: PilX_N; pfam14341 458817003545 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 458817003546 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 458817003547 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 458817003548 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 458817003549 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 458817003550 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 458817003551 Type II transport protein GspH; Region: GspH; pfam12019 458817003552 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 458817003553 Type II transport protein GspH; Region: GspH; pfam12019 458817003554 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 458817003555 Nitrogen regulatory protein P-II; Region: P-II; smart00938 458817003556 Transcriptional regulators [Transcription]; Region: PurR; COG1609 458817003557 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458817003558 DNA binding site [nucleotide binding] 458817003559 domain linker motif; other site 458817003560 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 458817003561 putative dimerization interface [polypeptide binding]; other site 458817003562 putative ligand binding site [chemical binding]; other site 458817003563 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 458817003564 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 458817003565 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 458817003566 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 458817003567 SapC; Region: SapC; pfam07277 458817003568 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 458817003569 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 458817003570 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 458817003571 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 458817003572 active site 458817003573 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 458817003574 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 458817003575 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 458817003576 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 458817003577 active site 458817003578 dimer interface [polypeptide binding]; other site 458817003579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 458817003580 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 458817003581 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817003582 putative substrate translocation pore; other site 458817003583 oxidative damage protection protein; Provisional; Region: PRK05408 458817003584 adenine DNA glycosylase; Provisional; Region: PRK10880 458817003585 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 458817003586 minor groove reading motif; other site 458817003587 helix-hairpin-helix signature motif; other site 458817003588 substrate binding pocket [chemical binding]; other site 458817003589 active site 458817003590 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 458817003591 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 458817003592 DNA binding and oxoG recognition site [nucleotide binding] 458817003593 Methyltransferase domain; Region: Methyltransf_31; pfam13847 458817003594 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 458817003595 S-adenosylmethionine binding site [chemical binding]; other site 458817003596 hypothetical protein; Provisional; Region: PRK11702 458817003597 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 458817003598 glutaminase; Provisional; Region: PRK00971 458817003599 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 458817003600 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817003601 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817003602 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 458817003603 putative effector binding pocket; other site 458817003604 dimerization interface [polypeptide binding]; other site 458817003605 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 458817003606 gating phenylalanine in ion channel; other site 458817003607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817003608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817003609 LysR substrate binding domain; Region: LysR_substrate; pfam03466 458817003610 dimerization interface [polypeptide binding]; other site 458817003611 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 458817003612 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 458817003613 HemN family oxidoreductase; Provisional; Region: PRK05660 458817003614 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 458817003615 FeS/SAM binding site; other site 458817003616 HemN C-terminal domain; Region: HemN_C; pfam06969 458817003617 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 458817003618 active site 458817003619 dimerization interface [polypeptide binding]; other site 458817003620 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 458817003621 hypothetical protein; Validated; Region: PRK05090 458817003622 YGGT family; Region: YGGT; pfam02325 458817003623 YGGT family; Region: YGGT; pfam02325 458817003624 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 458817003625 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 458817003626 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 458817003627 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458817003628 catalytic residue [active] 458817003629 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 458817003630 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 458817003631 Walker A motif; other site 458817003632 ATP binding site [chemical binding]; other site 458817003633 Walker B motif; other site 458817003634 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 458817003635 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 458817003636 ATP binding site [chemical binding]; other site 458817003637 Walker B motif; other site 458817003638 ferrochelatase; Reviewed; Region: hemH; PRK00035 458817003639 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 458817003640 C-terminal domain interface [polypeptide binding]; other site 458817003641 active site 458817003642 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 458817003643 active site 458817003644 N-terminal domain interface [polypeptide binding]; other site 458817003645 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 458817003646 hypothetical protein; Validated; Region: PRK00228 458817003647 translation initiation factor Sui1; Validated; Region: PRK06824 458817003648 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 458817003649 putative rRNA binding site [nucleotide binding]; other site 458817003650 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 458817003651 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817003652 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817003653 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 458817003654 dimerization interface [polypeptide binding]; other site 458817003655 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 458817003656 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 458817003657 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 458817003658 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 458817003659 N-terminal plug; other site 458817003660 ligand-binding site [chemical binding]; other site 458817003661 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817003662 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 458817003663 ligand binding site [chemical binding]; other site 458817003664 mechanosensitive channel MscS; Provisional; Region: PRK10334 458817003665 Conserved TM helix; Region: TM_helix; pfam05552 458817003666 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817003667 Predicted membrane protein [Function unknown]; Region: COG2860 458817003668 UPF0126 domain; Region: UPF0126; pfam03458 458817003669 UPF0126 domain; Region: UPF0126; pfam03458 458817003670 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 458817003671 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 458817003672 tetramer interface [polypeptide binding]; other site 458817003673 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817003674 catalytic residue [active] 458817003675 Putative phosphatase (DUF442); Region: DUF442; cl17385 458817003676 Helix-turn-helix domain; Region: HTH_28; pfam13518 458817003677 Winged helix-turn helix; Region: HTH_29; pfam13551 458817003678 Homeodomain-like domain; Region: HTH_32; pfam13565 458817003679 Integrase core domain; Region: rve; pfam00665 458817003680 Helix-turn-helix domain; Region: HTH_28; pfam13518 458817003681 Winged helix-turn helix; Region: HTH_29; pfam13551 458817003682 Homeodomain-like domain; Region: HTH_32; pfam13565 458817003683 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 458817003684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817003685 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817003686 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817003687 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817003688 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817003689 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817003690 Protein export membrane protein; Region: SecD_SecF; cl14618 458817003691 putative alcohol dehydrogenase; Provisional; Region: PRK09860 458817003692 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 458817003693 dimer interface [polypeptide binding]; other site 458817003694 active site 458817003695 metal binding site [ion binding]; metal-binding site 458817003696 Uncharacterized conserved protein [Function unknown]; Region: COG1432 458817003697 LabA_like proteins; Region: LabA; cd10911 458817003698 putative metal binding site [ion binding]; other site 458817003699 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817003700 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817003701 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817003702 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458817003703 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 458817003704 active site 458817003705 metal binding site [ion binding]; metal-binding site 458817003706 Acyltransferase family; Region: Acyl_transf_3; pfam01757 458817003707 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 458817003708 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817003709 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817003710 ABC transporter; Region: ABC_tran_2; pfam12848 458817003711 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817003712 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 458817003713 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 458817003714 dimer interface [polypeptide binding]; other site 458817003715 active site 458817003716 glycine-pyridoxal phosphate binding site [chemical binding]; other site 458817003717 folate binding site [chemical binding]; other site 458817003718 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 458817003719 ATP cone domain; Region: ATP-cone; pfam03477 458817003720 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 458817003721 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 458817003722 catalytic motif [active] 458817003723 Zn binding site [ion binding]; other site 458817003724 RibD C-terminal domain; Region: RibD_C; cl17279 458817003725 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 458817003726 Lumazine binding domain; Region: Lum_binding; pfam00677 458817003727 Lumazine binding domain; Region: Lum_binding; pfam00677 458817003728 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 458817003729 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 458817003730 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 458817003731 dimerization interface [polypeptide binding]; other site 458817003732 active site 458817003733 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 458817003734 homopentamer interface [polypeptide binding]; other site 458817003735 active site 458817003736 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 458817003737 putative RNA binding site [nucleotide binding]; other site 458817003738 thiamine monophosphate kinase; Provisional; Region: PRK05731 458817003739 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 458817003740 ATP binding site [chemical binding]; other site 458817003741 dimerization interface [polypeptide binding]; other site 458817003742 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 458817003743 tetramer interfaces [polypeptide binding]; other site 458817003744 binuclear metal-binding site [ion binding]; other site 458817003745 recombination and repair protein; Provisional; Region: PRK10869 458817003746 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 458817003747 Walker A/P-loop; other site 458817003748 ATP binding site [chemical binding]; other site 458817003749 Q-loop/lid; other site 458817003750 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 458817003751 ABC transporter signature motif; other site 458817003752 Walker B; other site 458817003753 D-loop; other site 458817003754 H-loop/switch region; other site 458817003755 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817003756 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817003757 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 458817003758 putative effector binding pocket; other site 458817003759 dimerization interface [polypeptide binding]; other site 458817003760 Protein of unknown function (DUF416); Region: DUF416; pfam04222 458817003761 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 458817003762 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 458817003763 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 458817003764 dimerization interface [polypeptide binding]; other site 458817003765 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 458817003766 dimer interface [polypeptide binding]; other site 458817003767 phosphorylation site [posttranslational modification] 458817003768 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817003769 ATP binding site [chemical binding]; other site 458817003770 Mg2+ binding site [ion binding]; other site 458817003771 G-X-G motif; other site 458817003772 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817003773 active site 458817003774 phosphorylation site [posttranslational modification] 458817003775 intermolecular recognition site; other site 458817003776 dimerization interface [polypeptide binding]; other site 458817003777 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 458817003778 putative binding surface; other site 458817003779 active site 458817003780 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 458817003781 TRAM domain; Region: TRAM; pfam01938 458817003782 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 458817003783 S-adenosylmethionine binding site [chemical binding]; other site 458817003784 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 458817003785 HD domain; Region: HD_4; pfam13328 458817003786 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 458817003787 synthetase active site [active] 458817003788 NTP binding site [chemical binding]; other site 458817003789 metal binding site [ion binding]; metal-binding site 458817003790 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 458817003791 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 458817003792 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 458817003793 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 458817003794 homodimer interface [polypeptide binding]; other site 458817003795 metal binding site [ion binding]; metal-binding site 458817003796 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 458817003797 homodimer interface [polypeptide binding]; other site 458817003798 active site 458817003799 putative chemical substrate binding site [chemical binding]; other site 458817003800 metal binding site [ion binding]; metal-binding site 458817003801 CTP synthetase; Validated; Region: pyrG; PRK05380 458817003802 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 458817003803 Catalytic site [active] 458817003804 active site 458817003805 UTP binding site [chemical binding]; other site 458817003806 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 458817003807 active site 458817003808 putative oxyanion hole; other site 458817003809 catalytic triad [active] 458817003810 enolase; Provisional; Region: eno; PRK00077 458817003811 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 458817003812 dimer interface [polypeptide binding]; other site 458817003813 metal binding site [ion binding]; metal-binding site 458817003814 substrate binding pocket [chemical binding]; other site 458817003815 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 458817003816 Septum formation initiator; Region: DivIC; cl17659 458817003817 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 458817003818 substrate binding site; other site 458817003819 dimer interface; other site 458817003820 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 458817003821 homotrimer interaction site [polypeptide binding]; other site 458817003822 zinc binding site [ion binding]; other site 458817003823 CDP-binding sites; other site 458817003824 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 458817003825 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 458817003826 Permutation of conserved domain; other site 458817003827 active site 458817003828 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 458817003829 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 458817003830 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 458817003831 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 458817003832 S-adenosylmethionine binding site [chemical binding]; other site 458817003833 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 458817003834 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458817003835 Peptidase family M23; Region: Peptidase_M23; pfam01551 458817003836 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 458817003837 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 458817003838 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817003839 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 458817003840 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 458817003841 DNA binding residues [nucleotide binding] 458817003842 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 458817003843 MutS domain I; Region: MutS_I; pfam01624 458817003844 MutS domain II; Region: MutS_II; pfam05188 458817003845 MutS domain III; Region: MutS_III; pfam05192 458817003846 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 458817003847 Walker A/P-loop; other site 458817003848 ATP binding site [chemical binding]; other site 458817003849 Q-loop/lid; other site 458817003850 ABC transporter signature motif; other site 458817003851 Walker B; other site 458817003852 D-loop; other site 458817003853 H-loop/switch region; other site 458817003854 recombinase A; Provisional; Region: recA; PRK09354 458817003855 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 458817003856 hexamer interface [polypeptide binding]; other site 458817003857 Walker A motif; other site 458817003858 ATP binding site [chemical binding]; other site 458817003859 Walker B motif; other site 458817003860 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 458817003861 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 458817003862 motif 1; other site 458817003863 active site 458817003864 motif 2; other site 458817003865 motif 3; other site 458817003866 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 458817003867 DHHA1 domain; Region: DHHA1; pfam02272 458817003868 carbon storage regulator; Provisional; Region: PRK01712 458817003869 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 458817003870 oxaloacetate decarboxylase; Provisional; Region: PRK14040 458817003871 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 458817003872 active site 458817003873 catalytic residues [active] 458817003874 metal binding site [ion binding]; metal-binding site 458817003875 homodimer binding site [polypeptide binding]; other site 458817003876 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 458817003877 carboxyltransferase (CT) interaction site; other site 458817003878 biotinylation site [posttranslational modification]; other site 458817003879 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 458817003880 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817003881 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 458817003882 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458817003883 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 458817003884 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817003885 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 458817003886 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 458817003887 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817003888 glutamate--cysteine ligase; Provisional; Region: PRK02107 458817003889 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 458817003890 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817003891 catalytic residue [active] 458817003892 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 458817003893 Cytochrome c/c1 heme lyase; Region: Cyto_heme_lyase; pfam01265 458817003894 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 458817003895 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817003896 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817003897 metal binding site [ion binding]; metal-binding site 458817003898 active site 458817003899 I-site; other site 458817003900 AIR carboxylase; Region: AIRC; pfam00731 458817003901 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 458817003902 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817003903 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 458817003904 DNA binding residues [nucleotide binding] 458817003905 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 458817003906 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817003907 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817003908 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 458817003909 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 458817003910 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 458817003911 protein binding site [polypeptide binding]; other site 458817003912 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 458817003913 Domain interface; other site 458817003914 Peptide binding site; other site 458817003915 Active site tetrad [active] 458817003916 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817003917 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817003918 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817003919 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 458817003920 OsmC-like protein; Region: OsmC; cl00767 458817003921 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 458817003922 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 458817003923 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 458817003924 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 458817003925 30S subunit binding site; other site 458817003926 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 458817003927 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 458817003928 TrkA-N domain; Region: TrkA_N; pfam02254 458817003929 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 458817003930 NnrS protein; Region: NnrS; pfam05940 458817003931 Cytochrome c552; Region: Cytochrom_C552; pfam02335 458817003932 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 458817003933 Helix-turn-helix domain; Region: HTH_18; pfam12833 458817003934 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817003935 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 458817003936 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 458817003937 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 458817003938 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817003939 active site 458817003940 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 458817003941 GTPase RsgA; Reviewed; Region: PRK01889 458817003942 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 458817003943 GTPase/Zn-binding domain interface [polypeptide binding]; other site 458817003944 GTP/Mg2+ binding site [chemical binding]; other site 458817003945 G4 box; other site 458817003946 G5 box; other site 458817003947 G1 box; other site 458817003948 Switch I region; other site 458817003949 G2 box; other site 458817003950 G3 box; other site 458817003951 Switch II region; other site 458817003952 Beta-lactamase; Region: Beta-lactamase; pfam00144 458817003953 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 458817003954 Domain of unknown function (DUF333); Region: DUF333; pfam03891 458817003955 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 458817003956 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 458817003957 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_5; cd04962 458817003958 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 458817003959 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817003960 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817003961 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 458817003962 substrate binding pocket [chemical binding]; other site 458817003963 membrane-bound complex binding site; other site 458817003964 hinge residues; other site 458817003965 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 458817003966 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 458817003967 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 458817003968 FOG: CBS domain [General function prediction only]; Region: COG0517 458817003969 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 458817003970 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 458817003971 dimer interface [polypeptide binding]; other site 458817003972 FMN binding site [chemical binding]; other site 458817003973 NADPH bind site [chemical binding]; other site 458817003974 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 458817003975 substrate binding site [chemical binding]; other site 458817003976 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 458817003977 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 458817003978 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817003979 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 458817003980 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 458817003981 PhnA protein; Region: PhnA; pfam03831 458817003982 Cupin; Region: Cupin_6; pfam12852 458817003983 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817003984 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 458817003985 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817003986 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 458817003987 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 458817003988 Protein of unknown function, DUF417; Region: DUF417; cl01162 458817003989 Winged helix-turn helix; Region: HTH_29; pfam13551 458817003990 Helix-turn-helix domain; Region: HTH_28; pfam13518 458817003991 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 458817003992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817003993 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 458817003994 dimerization interface [polypeptide binding]; other site 458817003995 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 458817003996 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817003997 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817003998 metal binding site [ion binding]; metal-binding site 458817003999 active site 458817004000 I-site; other site 458817004001 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817004002 HAMP domain; Region: HAMP; pfam00672 458817004003 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817004004 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817004005 dimer interface [polypeptide binding]; other site 458817004006 putative CheW interface [polypeptide binding]; other site 458817004007 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 458817004008 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 458817004009 NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]; Region: Lig; COG0272 458817004010 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 458817004011 P-loop containing region of AAA domain; Region: AAA_29; cl17516 458817004012 AAA domain; Region: AAA_21; pfam13304 458817004013 AAA domain; Region: AAA_17; cl17253 458817004014 TIGR02646 family protein; Region: TIGR02646 458817004015 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 458817004016 integrase; Provisional; Region: int; PHA02601 458817004017 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 458817004018 active site 458817004019 DNA binding site [nucleotide binding] 458817004020 Int/Topo IB signature motif; other site 458817004021 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; cl00038 458817004022 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 458817004023 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 458817004024 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 458817004025 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 458817004026 Src Homology 3 domain superfamily; Region: SH3; cl17036 458817004027 Phage-related protein [Function unknown]; Region: COG4695; cl01923 458817004028 Phage portal protein; Region: Phage_portal; pfam04860 458817004029 terminase ATPase subunit; Provisional; Region: P; PHA02535 458817004030 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 458817004031 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 458817004032 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 458817004033 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 458817004034 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 458817004035 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 458817004036 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 458817004037 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 458817004038 Protein of unknown function (DUF2597); Region: DUF2597; pfam10772 458817004039 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 458817004040 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 458817004041 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 458817004042 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 458817004043 Protein of unknown function (DUF2765); Region: DUF2765; pfam10963 458817004044 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 458817004045 Protein of unknown function (DUF2590); Region: DUF2590; pfam10761 458817004046 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 458817004047 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 458817004048 SmpB-tmRNA interface; other site 458817004049 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 458817004050 putative coenzyme Q binding site [chemical binding]; other site 458817004051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 458817004052 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 458817004053 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 458817004054 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 458817004055 active site 458817004056 SAM binding site [chemical binding]; other site 458817004057 homodimer interface [polypeptide binding]; other site 458817004058 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 458817004059 dimer interface [polypeptide binding]; other site 458817004060 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817004061 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817004062 metal binding site [ion binding]; metal-binding site 458817004063 active site 458817004064 I-site; other site 458817004065 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 458817004066 malate synthase A; Region: malate_syn_A; TIGR01344 458817004067 active site 458817004068 HDOD domain; Region: HDOD; pfam08668 458817004069 GAF domain; Region: GAF; pfam01590 458817004070 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458817004071 SnoaL-like domain; Region: SnoaL_3; pfam13474 458817004072 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 458817004073 ParA-like protein; Provisional; Region: PHA02518 458817004074 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 458817004075 P-loop; other site 458817004076 Magnesium ion binding site [ion binding]; other site 458817004077 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 458817004078 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 458817004079 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817004080 Coenzyme A binding pocket [chemical binding]; other site 458817004081 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 458817004082 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817004083 Coenzyme A binding pocket [chemical binding]; other site 458817004084 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 458817004085 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 458817004086 active site 458817004087 metal binding site [ion binding]; metal-binding site 458817004088 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 458817004089 Domain of unknown function DUF21; Region: DUF21; pfam01595 458817004090 FOG: CBS domain [General function prediction only]; Region: COG0517 458817004091 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 458817004092 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 458817004093 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 458817004094 FeS/SAM binding site; other site 458817004095 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 458817004096 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 458817004097 binding surface 458817004098 TPR motif; other site 458817004099 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 458817004100 binding surface 458817004101 TPR motif; other site 458817004102 cytoskeletal protein RodZ; Provisional; Region: PRK10856 458817004103 Helix-turn-helix domain; Region: HTH_25; pfam13413 458817004104 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 458817004105 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 458817004106 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 458817004107 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 458817004108 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 458817004109 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 458817004110 dimer interface [polypeptide binding]; other site 458817004111 motif 1; other site 458817004112 active site 458817004113 motif 2; other site 458817004114 motif 3; other site 458817004115 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 458817004116 anticodon binding site; other site 458817004117 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 458817004118 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 458817004119 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 458817004120 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 458817004121 Trp docking motif [polypeptide binding]; other site 458817004122 active site 458817004123 GTP-binding protein Der; Reviewed; Region: PRK00093 458817004124 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 458817004125 G1 box; other site 458817004126 GTP/Mg2+ binding site [chemical binding]; other site 458817004127 Switch I region; other site 458817004128 G2 box; other site 458817004129 Switch II region; other site 458817004130 G3 box; other site 458817004131 G4 box; other site 458817004132 G5 box; other site 458817004133 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 458817004134 G1 box; other site 458817004135 GTP/Mg2+ binding site [chemical binding]; other site 458817004136 Switch I region; other site 458817004137 G2 box; other site 458817004138 G3 box; other site 458817004139 Switch II region; other site 458817004140 G4 box; other site 458817004141 G5 box; other site 458817004142 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 458817004143 xanthine permease; Region: pbuX; TIGR03173 458817004144 CHASE3 domain; Region: CHASE3; cl05000 458817004145 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 458817004146 dimerization interface [polypeptide binding]; other site 458817004147 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817004148 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817004149 dimer interface [polypeptide binding]; other site 458817004150 putative CheW interface [polypeptide binding]; other site 458817004151 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 458817004152 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 458817004153 generic binding surface II; other site 458817004154 generic binding surface I; other site 458817004155 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 458817004156 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 458817004157 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 458817004158 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 458817004159 active site 458817004160 GMP synthase; Reviewed; Region: guaA; PRK00074 458817004161 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 458817004162 AMP/PPi binding site [chemical binding]; other site 458817004163 candidate oxyanion hole; other site 458817004164 catalytic triad [active] 458817004165 potential glutamine specificity residues [chemical binding]; other site 458817004166 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 458817004167 ATP Binding subdomain [chemical binding]; other site 458817004168 Ligand Binding sites [chemical binding]; other site 458817004169 Dimerization subdomain; other site 458817004170 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 458817004171 nucleoside/Zn binding site; other site 458817004172 dimer interface [polypeptide binding]; other site 458817004173 catalytic motif [active] 458817004174 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 458817004175 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 458817004176 substrate binding pocket [chemical binding]; other site 458817004177 membrane-bound complex binding site; other site 458817004178 hinge residues; other site 458817004179 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 458817004180 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817004181 catalytic residue [active] 458817004182 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 458817004183 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 458817004184 dimerization interface [polypeptide binding]; other site 458817004185 ATP binding site [chemical binding]; other site 458817004186 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 458817004187 dimerization interface [polypeptide binding]; other site 458817004188 ATP binding site [chemical binding]; other site 458817004189 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 458817004190 putative active site [active] 458817004191 catalytic triad [active] 458817004192 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 458817004193 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 458817004194 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 458817004195 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 458817004196 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 458817004197 Cache domain; Region: Cache_1; pfam02743 458817004198 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817004199 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817004200 dimer interface [polypeptide binding]; other site 458817004201 putative CheW interface [polypeptide binding]; other site 458817004202 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817004203 Protein export membrane protein; Region: SecD_SecF; cl14618 458817004204 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817004205 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817004206 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817004207 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817004208 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817004209 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 458817004210 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 458817004211 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 458817004212 binding surface 458817004213 TPR motif; other site 458817004214 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 458817004215 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 458817004216 NAD(P) binding site [chemical binding]; other site 458817004217 homodimer interface [polypeptide binding]; other site 458817004218 substrate binding site [chemical binding]; other site 458817004219 active site 458817004220 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 458817004221 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 458817004222 inhibitor-cofactor binding pocket; inhibition site 458817004223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817004224 catalytic residue [active] 458817004225 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 458817004226 active site 458817004227 N-terminal catalytic domain of alpha-galactosidase; glycoside hydrolase family 57 (GH57); Region: GH57N_PfGalA_like; cd10794 458817004228 putative active site [active] 458817004229 catalytic site [active] 458817004230 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 458817004231 Methyltransferase domain; Region: Methyltransf_23; pfam13489 458817004232 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 458817004233 S-adenosylmethionine binding site [chemical binding]; other site 458817004234 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 458817004235 active site 458817004236 Methyltransferase domain; Region: Methyltransf_31; pfam13847 458817004237 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 458817004238 S-adenosylmethionine binding site [chemical binding]; other site 458817004239 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 458817004240 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 458817004241 TPP-binding site; other site 458817004242 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 458817004243 PYR/PP interface [polypeptide binding]; other site 458817004244 dimer interface [polypeptide binding]; other site 458817004245 TPP binding site [chemical binding]; other site 458817004246 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458817004247 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 458817004248 classical (c) SDRs; Region: SDR_c; cd05233 458817004249 NAD(P) binding site [chemical binding]; other site 458817004250 active site 458817004251 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 458817004252 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 458817004253 NeuB family; Region: NeuB; pfam03102 458817004254 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 458817004255 S-adenosylmethionine binding site [chemical binding]; other site 458817004256 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817004257 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 458817004258 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 458817004259 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 458817004260 Cupin domain; Region: Cupin_2; cl17218 458817004261 Helix-turn-helix domain; Region: HTH_18; pfam12833 458817004262 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817004263 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 458817004264 4Fe-4S binding domain; Region: Fer4; pfam00037 458817004265 4Fe-4S binding domain; Region: Fer4_6; pfam12837 458817004266 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 458817004267 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 458817004268 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 458817004269 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817004270 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 458817004271 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 458817004272 FeS/SAM binding site; other site 458817004273 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 458817004274 biotin synthase; Provisional; Region: PRK07094 458817004275 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 458817004276 FeS/SAM binding site; other site 458817004277 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 458817004278 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 458817004279 G1 box; other site 458817004280 GTP/Mg2+ binding site [chemical binding]; other site 458817004281 Switch I region; other site 458817004282 G2 box; other site 458817004283 Switch II region; other site 458817004284 G3 box; other site 458817004285 G4 box; other site 458817004286 G5 box; other site 458817004287 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 458817004288 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 458817004289 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 458817004290 ATP binding site [chemical binding]; other site 458817004291 putative Mg++ binding site [ion binding]; other site 458817004292 helicase superfamily c-terminal domain; Region: HELICc; smart00490 458817004293 nucleotide binding region [chemical binding]; other site 458817004294 ATP-binding site [chemical binding]; other site 458817004295 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]; Region: HEC1; COG5185 458817004296 Predicted integral membrane protein [Function unknown]; Region: COG5616 458817004297 LPP20 lipoprotein; Region: LPP20; pfam02169 458817004298 FlgN protein; Region: FlgN; pfam05130 458817004299 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 458817004300 SAF-like; Region: SAF_2; pfam13144 458817004301 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 458817004302 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 458817004303 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 458817004304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004305 active site 458817004306 phosphorylation site [posttranslational modification] 458817004307 intermolecular recognition site; other site 458817004308 dimerization interface [polypeptide binding]; other site 458817004309 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 458817004310 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 458817004311 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 458817004312 S-adenosylmethionine binding site [chemical binding]; other site 458817004313 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 458817004314 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 458817004315 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 458817004316 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 458817004317 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 458817004318 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 458817004319 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 458817004320 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 458817004321 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 458817004322 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 458817004323 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 458817004324 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 458817004325 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 458817004326 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 458817004327 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 458817004328 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 458817004329 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 458817004330 Flagellar L-ring protein; Region: FlgH; pfam02107 458817004331 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 458817004332 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 458817004333 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 458817004334 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12713 458817004335 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 458817004336 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 458817004337 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 458817004338 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 458817004339 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 458817004340 flagellin; Provisional; Region: PRK12802 458817004341 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 458817004342 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 458817004343 flagellin; Provisional; Region: PRK12802 458817004344 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 458817004345 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 458817004346 FlaG protein; Region: FlaG; pfam03646 458817004347 flagellar capping protein; Reviewed; Region: fliD; PRK08032 458817004348 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 458817004349 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 458817004350 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 458817004351 flagellar protein FliS; Validated; Region: fliS; PRK05685 458817004352 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 458817004353 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 458817004354 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817004355 Walker A motif; other site 458817004356 ATP binding site [chemical binding]; other site 458817004357 Walker B motif; other site 458817004358 arginine finger; other site 458817004359 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817004360 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458817004361 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 458817004362 putative active site [active] 458817004363 heme pocket [chemical binding]; other site 458817004364 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 458817004365 dimer interface [polypeptide binding]; other site 458817004366 phosphorylation site [posttranslational modification] 458817004367 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817004368 ATP binding site [chemical binding]; other site 458817004369 Mg2+ binding site [ion binding]; other site 458817004370 G-X-G motif; other site 458817004371 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817004372 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004373 active site 458817004374 phosphorylation site [posttranslational modification] 458817004375 intermolecular recognition site; other site 458817004376 dimerization interface [polypeptide binding]; other site 458817004377 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817004378 Walker A motif; other site 458817004379 ATP binding site [chemical binding]; other site 458817004380 Walker B motif; other site 458817004381 arginine finger; other site 458817004382 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817004383 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 458817004384 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 458817004385 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 458817004386 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 458817004387 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 458817004388 MgtE intracellular N domain; Region: MgtE_N; smart00924 458817004389 FliG C-terminal domain; Region: FliG_C; pfam01706 458817004390 flagellar assembly protein H; Validated; Region: fliH; PRK05687 458817004391 Flagellar assembly protein FliH; Region: FliH; pfam02108 458817004392 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 458817004393 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 458817004394 Walker A motif/ATP binding site; other site 458817004395 Walker B motif; other site 458817004396 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 458817004397 Flagellar FliJ protein; Region: FliJ; pfam02050 458817004398 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 458817004399 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 458817004400 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 458817004401 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 458817004402 flagellar motor switch protein; Validated; Region: fliN; PRK08983 458817004403 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 458817004404 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 458817004405 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 458817004406 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 458817004407 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 458817004408 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 458817004409 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 458817004410 FHIPEP family; Region: FHIPEP; pfam00771 458817004411 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 458817004412 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 458817004413 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 458817004414 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 458817004415 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 458817004416 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 458817004417 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817004418 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 458817004419 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 458817004420 DNA binding residues [nucleotide binding] 458817004421 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 458817004422 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004423 active site 458817004424 phosphorylation site [posttranslational modification] 458817004425 intermolecular recognition site; other site 458817004426 dimerization interface [polypeptide binding]; other site 458817004427 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 458817004428 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 458817004429 putative binding surface; other site 458817004430 active site 458817004431 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 458817004432 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 458817004433 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817004434 ATP binding site [chemical binding]; other site 458817004435 Mg2+ binding site [ion binding]; other site 458817004436 G-X-G motif; other site 458817004437 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 458817004438 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 458817004439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004440 active site 458817004441 phosphorylation site [posttranslational modification] 458817004442 intermolecular recognition site; other site 458817004443 dimerization interface [polypeptide binding]; other site 458817004444 CheB methylesterase; Region: CheB_methylest; pfam01339 458817004445 Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]; Region: GyrB; COG0187 458817004446 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 458817004447 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 458817004448 P-loop; other site 458817004449 Magnesium ion binding site [ion binding]; other site 458817004450 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 458817004451 Magnesium ion binding site [ion binding]; other site 458817004452 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 458817004453 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 458817004454 putative CheA interaction surface; other site 458817004455 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 458817004456 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 458817004457 VacJ like lipoprotein; Region: VacJ; cl01073 458817004458 Response regulator receiver domain; Region: Response_reg; pfam00072 458817004459 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004460 active site 458817004461 phosphorylation site [posttranslational modification] 458817004462 intermolecular recognition site; other site 458817004463 dimerization interface [polypeptide binding]; other site 458817004464 hypothetical protein; Reviewed; Region: PRK12275 458817004465 four helix bundle protein; Region: TIGR02436 458817004466 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 458817004467 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817004468 putative substrate translocation pore; other site 458817004469 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 458817004470 transcriptional activator RfaH; Region: RfaH; TIGR01955 458817004471 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 458817004472 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 458817004473 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 458817004474 SLBB domain; Region: SLBB; pfam10531 458817004475 SLBB domain; Region: SLBB; pfam10531 458817004476 SLBB domain; Region: SLBB; pfam10531 458817004477 hypothetical protein; Reviewed; Region: PRK12275 458817004478 four helix bundle protein; Region: TIGR02436 458817004479 Chain length determinant protein; Region: Wzz; pfam02706 458817004480 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 458817004481 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 458817004482 NAD binding site [chemical binding]; other site 458817004483 substrate binding site [chemical binding]; other site 458817004484 homodimer interface [polypeptide binding]; other site 458817004485 active site 458817004486 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 458817004487 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 458817004488 substrate binding site; other site 458817004489 tetramer interface; other site 458817004490 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 458817004491 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 458817004492 NADP binding site [chemical binding]; other site 458817004493 active site 458817004494 putative substrate binding site [chemical binding]; other site 458817004495 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 458817004496 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 458817004497 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 458817004498 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 458817004499 active site 458817004500 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 458817004501 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 458817004502 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 458817004503 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 458817004504 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 458817004505 active site 458817004506 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 458817004507 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458817004508 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 458817004509 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 458817004510 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458817004511 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 458817004512 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 458817004513 Mg++ binding site [ion binding]; other site 458817004514 putative catalytic motif [active] 458817004515 substrate binding site [chemical binding]; other site 458817004516 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 458817004517 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 458817004518 Mg++ binding site [ion binding]; other site 458817004519 putative catalytic motif [active] 458817004520 substrate binding site [chemical binding]; other site 458817004521 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 458817004522 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 458817004523 Beta-Casp domain; Region: Beta-Casp; smart01027 458817004524 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 458817004525 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 458817004526 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 458817004527 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 458817004528 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 458817004529 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 458817004530 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 458817004531 putative NAD(P) binding site [chemical binding]; other site 458817004532 active site 458817004533 putative substrate binding site [chemical binding]; other site 458817004534 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 458817004535 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 458817004536 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 458817004537 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458817004538 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 458817004539 active site 458817004540 nucleotide binding site [chemical binding]; other site 458817004541 HIGH motif; other site 458817004542 KMSKS motif; other site 458817004543 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 458817004544 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 458817004545 active site 458817004546 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 458817004547 putative trimer interface [polypeptide binding]; other site 458817004548 putative CoA binding site [chemical binding]; other site 458817004549 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 458817004550 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 458817004551 Bacterial sugar transferase; Region: Bac_transf; pfam02397 458817004552 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 458817004553 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 458817004554 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 458817004555 active site 458817004556 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 458817004557 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 458817004558 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 458817004559 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 458817004560 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 458817004561 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 458817004562 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 458817004563 anti sigma factor interaction site; other site 458817004564 regulatory phosphorylation site [posttranslational modification]; other site 458817004565 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 458817004566 Histidine kinase-like ATPases; This family includes several ATP-binding 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 458817004567 Response regulator receiver domain; Region: Response_reg; pfam00072 458817004568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004569 active site 458817004570 phosphorylation site [posttranslational modification] 458817004571 intermolecular recognition site; other site 458817004572 dimerization interface [polypeptide binding]; other site 458817004573 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 458817004574 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 458817004575 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 458817004576 dimerization interface [polypeptide binding]; other site 458817004577 PAS domain S-box; Region: sensory_box; TIGR00229 458817004578 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 458817004579 putative active site [active] 458817004580 heme pocket [chemical binding]; other site 458817004581 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458817004582 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 458817004583 putative active site [active] 458817004584 heme pocket [chemical binding]; other site 458817004585 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 458817004586 dimer interface [polypeptide binding]; other site 458817004587 phosphorylation site [posttranslational modification] 458817004588 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817004589 ATP binding site [chemical binding]; other site 458817004590 Mg2+ binding site [ion binding]; other site 458817004591 G-X-G motif; other site 458817004592 Response regulator receiver domain; Region: Response_reg; pfam00072 458817004593 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004594 active site 458817004595 phosphorylation site [posttranslational modification] 458817004596 intermolecular recognition site; other site 458817004597 dimerization interface [polypeptide binding]; other site 458817004598 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 458817004599 putative binding surface; other site 458817004600 active site 458817004601 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817004602 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004603 active site 458817004604 phosphorylation site [posttranslational modification] 458817004605 intermolecular recognition site; other site 458817004606 dimerization interface [polypeptide binding]; other site 458817004607 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817004608 Walker A motif; other site 458817004609 ATP binding site [chemical binding]; other site 458817004610 Walker B motif; other site 458817004611 arginine finger; other site 458817004612 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817004613 putative hydrolase; Validated; Region: PRK09248 458817004614 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 458817004615 active site 458817004616 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 458817004617 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 458817004618 NADP binding site [chemical binding]; other site 458817004619 active site 458817004620 putative substrate binding site [chemical binding]; other site 458817004621 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 458817004622 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 458817004623 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 458817004624 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 458817004625 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 458817004626 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 458817004627 active site 458817004628 fructokinase; Reviewed; Region: PRK09557 458817004629 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 458817004630 nucleotide binding site [chemical binding]; other site 458817004631 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 458817004632 Uncharacterized conserved protein [Function unknown]; Region: COG1434 458817004633 putative active site [active] 458817004634 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 458817004635 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 458817004636 ferredoxin-type protein; Provisional; Region: PRK10194 458817004637 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 458817004638 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 458817004639 UDP-glucose 4-epimerase; Region: PLN02240 458817004640 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 458817004641 NAD binding site [chemical binding]; other site 458817004642 homodimer interface [polypeptide binding]; other site 458817004643 active site 458817004644 substrate binding site [chemical binding]; other site 458817004645 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 458817004646 active site 458817004647 tetramer interface; other site 458817004648 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 458817004649 cofactor binding site; other site 458817004650 metal binding site [ion binding]; metal-binding site 458817004651 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 458817004652 aromatic arch; other site 458817004653 DCoH dimer interaction site [polypeptide binding]; other site 458817004654 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 458817004655 DCoH tetramer interaction site [polypeptide binding]; other site 458817004656 substrate binding site [chemical binding]; other site 458817004657 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 458817004658 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 458817004659 putative aromatic amino acid binding site; other site 458817004660 PAS domain; Region: PAS; smart00091 458817004661 putative active site [active] 458817004662 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817004663 Walker A motif; other site 458817004664 ATP binding site [chemical binding]; other site 458817004665 Walker B motif; other site 458817004666 arginine finger; other site 458817004667 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 458817004668 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 458817004669 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 458817004670 maleylacetoacetate isomerase; Region: maiA; TIGR01262 458817004671 C-terminal domain interface [polypeptide binding]; other site 458817004672 GSH binding site (G-site) [chemical binding]; other site 458817004673 putative dimer interface [polypeptide binding]; other site 458817004674 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 458817004675 dimer interface [polypeptide binding]; other site 458817004676 N-terminal domain interface [polypeptide binding]; other site 458817004677 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 458817004678 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817004679 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817004680 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 458817004681 dimerization interface [polypeptide binding]; other site 458817004682 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817004683 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817004684 putative substrate translocation pore; other site 458817004685 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 458817004686 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 458817004687 active site 458817004688 HIGH motif; other site 458817004689 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 458817004690 active site 458817004691 KMSKS motif; other site 458817004692 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 458817004693 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458817004694 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 458817004695 Walker A/P-loop; other site 458817004696 ATP binding site [chemical binding]; other site 458817004697 Q-loop/lid; other site 458817004698 ABC transporter signature motif; other site 458817004699 Walker B; other site 458817004700 D-loop; other site 458817004701 H-loop/switch region; other site 458817004702 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 458817004703 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 458817004704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817004705 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817004706 AlkA N-terminal domain; Region: AlkA_N; pfam06029 458817004707 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 458817004708 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 458817004709 minor groove reading motif; other site 458817004710 helix-hairpin-helix signature motif; other site 458817004711 substrate binding pocket [chemical binding]; other site 458817004712 active site 458817004713 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 458817004714 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 458817004715 DNA binding site [nucleotide binding] 458817004716 active site 458817004717 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 458817004718 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458817004719 ATP binding site [chemical binding]; other site 458817004720 Mg++ binding site [ion binding]; other site 458817004721 motif III; other site 458817004722 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 458817004723 nucleotide binding region [chemical binding]; other site 458817004724 ATP-binding site [chemical binding]; other site 458817004725 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 458817004726 active site 458817004727 catalytic residues [active] 458817004728 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 458817004729 PLD-like domain; Region: PLDc_2; pfam13091 458817004730 putative active site [active] 458817004731 catalytic site [active] 458817004732 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 458817004733 PLD-like domain; Region: PLDc_2; pfam13091 458817004734 putative active site [active] 458817004735 catalytic site [active] 458817004736 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 458817004737 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 458817004738 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004739 active site 458817004740 phosphorylation site [posttranslational modification] 458817004741 intermolecular recognition site; other site 458817004742 dimerization interface [polypeptide binding]; other site 458817004743 serine/threonine transporter SstT; Provisional; Region: PRK13628 458817004744 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817004745 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 458817004746 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 458817004747 active site 458817004748 Protein of unknown function, DUF479; Region: DUF479; cl01203 458817004749 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 458817004750 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 458817004751 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 458817004752 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 458817004753 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 458817004754 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 458817004755 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 458817004756 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 458817004757 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 458817004758 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 458817004759 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 458817004760 Protein export membrane protein; Region: SecD_SecF; pfam02355 458817004761 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 458817004762 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 458817004763 active site residue [active] 458817004764 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 458817004765 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 458817004766 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 458817004767 YaeQ protein; Region: YaeQ; pfam07152 458817004768 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 458817004769 Carbon starvation protein CstA; Region: CstA; pfam02554 458817004770 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 458817004771 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 458817004772 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817004773 active site 458817004774 phosphorylation site [posttranslational modification] 458817004775 intermolecular recognition site; other site 458817004776 dimerization interface [polypeptide binding]; other site 458817004777 LytTr DNA-binding domain; Region: LytTR; pfam04397 458817004778 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 458817004779 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 458817004780 GAF domain; Region: GAF; pfam01590 458817004781 Histidine kinase; Region: His_kinase; pfam06580 458817004782 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817004783 ATP binding site [chemical binding]; other site 458817004784 Mg2+ binding site [ion binding]; other site 458817004785 G-X-G motif; other site 458817004786 probable metal-binding protein; Region: matur_matur; TIGR03853 458817004787 PilZ domain; Region: PilZ; pfam07238 458817004788 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 458817004789 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 458817004790 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 458817004791 active site 458817004792 dimerization interface [polypeptide binding]; other site 458817004793 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 458817004794 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 458817004795 serine O-acetyltransferase; Region: cysE; TIGR01172 458817004796 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 458817004797 trimer interface [polypeptide binding]; other site 458817004798 active site 458817004799 substrate binding site [chemical binding]; other site 458817004800 CoA binding site [chemical binding]; other site 458817004801 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 458817004802 Rrf2 family protein; Region: rrf2_super; TIGR00738 458817004803 cysteine desulfurase; Provisional; Region: PRK14012 458817004804 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 458817004805 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817004806 catalytic residue [active] 458817004807 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 458817004808 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 458817004809 trimerization site [polypeptide binding]; other site 458817004810 active site 458817004811 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 458817004812 co-chaperone HscB; Provisional; Region: hscB; PRK05014 458817004813 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 458817004814 HSP70 interaction site [polypeptide binding]; other site 458817004815 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 458817004816 chaperone protein HscA; Provisional; Region: hscA; PRK05183 458817004817 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 458817004818 nucleotide binding site [chemical binding]; other site 458817004819 putative NEF/HSP70 interaction site [polypeptide binding]; other site 458817004820 SBD interface [polypeptide binding]; other site 458817004821 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 458817004822 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 458817004823 catalytic loop [active] 458817004824 iron binding site [ion binding]; other site 458817004825 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 458817004826 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 458817004827 active site 458817004828 multimer interface [polypeptide binding]; other site 458817004829 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 458817004830 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 458817004831 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 458817004832 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 458817004833 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 458817004834 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 458817004835 FMN binding site [chemical binding]; other site 458817004836 active site 458817004837 catalytic residues [active] 458817004838 substrate binding site [chemical binding]; other site 458817004839 hypothetical protein; Provisional; Region: PRK05409 458817004840 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 458817004841 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 458817004842 hypothetical protein; Provisional; Region: PRK10527 458817004843 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817004844 active site 458817004845 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 458817004846 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817004847 Walker A motif; other site 458817004848 ATP binding site [chemical binding]; other site 458817004849 Walker B motif; other site 458817004850 DNA polymerase III subunit delta'; Validated; Region: PRK08485 458817004851 arginine finger; other site 458817004852 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 458817004853 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 458817004854 hypothetical protein; Validated; Region: PRK00153 458817004855 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 458817004856 trimer interface [polypeptide binding]; other site 458817004857 active site 458817004858 substrate binding site [chemical binding]; other site 458817004859 CoA binding site [chemical binding]; other site 458817004860 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 458817004861 Sel1 repeat; Region: Sel1; cl02723 458817004862 recombination protein RecR; Reviewed; Region: recR; PRK00076 458817004863 RecR protein; Region: RecR; pfam02132 458817004864 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 458817004865 putative active site [active] 458817004866 putative metal-binding site [ion binding]; other site 458817004867 tetramer interface [polypeptide binding]; other site 458817004868 heat shock protein 90; Provisional; Region: PRK05218 458817004869 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817004870 ATP binding site [chemical binding]; other site 458817004871 Mg2+ binding site [ion binding]; other site 458817004872 G-X-G motif; other site 458817004873 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 458817004874 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 458817004875 adenylate kinase; Reviewed; Region: adk; PRK00279 458817004876 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 458817004877 AMP-binding site [chemical binding]; other site 458817004878 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 458817004879 ferrochelatase; Reviewed; Region: hemH; PRK00035 458817004880 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 458817004881 C-terminal domain interface [polypeptide binding]; other site 458817004882 active site 458817004883 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 458817004884 active site 458817004885 N-terminal domain interface [polypeptide binding]; other site 458817004886 inosine/guanosine kinase; Provisional; Region: PRK15074 458817004887 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 458817004888 maltose O-acetyltransferase; Provisional; Region: PRK10092 458817004889 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 458817004890 active site 458817004891 substrate binding site [chemical binding]; other site 458817004892 trimer interface [polypeptide binding]; other site 458817004893 CoA binding site [chemical binding]; other site 458817004894 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817004895 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 458817004896 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 458817004897 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 458817004898 succinylarginine dihydrolase; Provisional; Region: PRK13281 458817004899 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 458817004900 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 458817004901 active site 458817004902 interdomain interaction site; other site 458817004903 putative metal-binding site [ion binding]; other site 458817004904 nucleotide binding site [chemical binding]; other site 458817004905 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 458817004906 domain I; other site 458817004907 DNA binding groove [nucleotide binding] 458817004908 phosphate binding site [ion binding]; other site 458817004909 domain II; other site 458817004910 domain III; other site 458817004911 nucleotide binding site [chemical binding]; other site 458817004912 catalytic site [active] 458817004913 domain IV; other site 458817004914 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 458817004915 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 458817004916 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 458817004917 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 458817004918 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 458817004919 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817004920 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 458817004921 substrate binding site [chemical binding]; other site 458817004922 dimerization interface [polypeptide binding]; other site 458817004923 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 458817004924 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 458817004925 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 458817004926 beta-hexosaminidase; Provisional; Region: PRK05337 458817004927 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 458817004928 hypothetical protein; Provisional; Region: PRK04940 458817004929 acylphosphatase; Provisional; Region: PRK14429 458817004930 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 458817004931 transcription-repair coupling factor; Provisional; Region: PRK10689 458817004932 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 458817004933 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 458817004934 ATP binding site [chemical binding]; other site 458817004935 putative Mg++ binding site [ion binding]; other site 458817004936 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 458817004937 nucleotide binding region [chemical binding]; other site 458817004938 ATP-binding site [chemical binding]; other site 458817004939 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 458817004940 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 458817004941 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817004942 FtsX-like permease family; Region: FtsX; pfam02687 458817004943 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 458817004944 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 458817004945 Walker A/P-loop; other site 458817004946 ATP binding site [chemical binding]; other site 458817004947 Q-loop/lid; other site 458817004948 ABC transporter signature motif; other site 458817004949 Walker B; other site 458817004950 D-loop; other site 458817004951 H-loop/switch region; other site 458817004952 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 458817004953 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817004954 FtsX-like permease family; Region: FtsX; pfam02687 458817004955 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 458817004956 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 458817004957 putative active site [active] 458817004958 Zn binding site [ion binding]; other site 458817004959 Nuclear pore complex component; Region: NPCC; pfam08058 458817004960 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 458817004961 putative metal binding site [ion binding]; other site 458817004962 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 458817004963 Ion transport protein; Region: Ion_trans; pfam00520 458817004964 Ion channel; Region: Ion_trans_2; pfam07885 458817004965 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 458817004966 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 458817004967 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 458817004968 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 458817004969 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817004970 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817004971 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817004972 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817004973 Protein export membrane protein; Region: SecD_SecF; cl14618 458817004974 Protein export membrane protein; Region: SecD_SecF; cl14618 458817004975 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 458817004976 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 458817004977 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 458817004978 Integral membrane protein TerC family; Region: TerC; cl10468 458817004979 integron integrase; Region: integrase_gron; TIGR02249 458817004980 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 458817004981 Int/Topo IB signature motif; other site 458817004982 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 458817004983 ATP adenylyltransferase (5',5'''-P-1,P-4-tetraphosphate phosphorylase II) [Nucleotide transport and metabolism]; Region: APA2; COG4360 458817004984 ATP adenylyltransferase; Region: ATP_transf; pfam09830 458817004985 Uncharacterized conserved protein [Function unknown]; Region: COG3791 458817004986 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 458817004987 Ligand Binding Site [chemical binding]; other site 458817004988 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817004989 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 458817004990 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 458817004991 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 458817004992 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 458817004993 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 458817004994 dimer interface [polypeptide binding]; other site 458817004995 active site residues [active] 458817004996 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 458817004997 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 458817004998 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 458817004999 E3 interaction surface; other site 458817005000 lipoyl attachment site [posttranslational modification]; other site 458817005001 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 458817005002 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 458817005003 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 458817005004 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 458817005005 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 458817005006 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 458817005007 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 458817005008 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 458817005009 catalytic loop [active] 458817005010 iron binding site [ion binding]; other site 458817005011 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 458817005012 FAD binding pocket [chemical binding]; other site 458817005013 FAD binding motif [chemical binding]; other site 458817005014 phosphate binding motif [ion binding]; other site 458817005015 beta-alpha-beta structure motif; other site 458817005016 NAD binding pocket [chemical binding]; other site 458817005017 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 458817005018 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 458817005019 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 458817005020 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 458817005021 substrate binding site [chemical binding]; other site 458817005022 active site 458817005023 catalytic residues [active] 458817005024 heterodimer interface [polypeptide binding]; other site 458817005025 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 458817005026 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 458817005027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817005028 catalytic residue [active] 458817005029 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 458817005030 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 458817005031 active site 458817005032 ribulose/triose binding site [chemical binding]; other site 458817005033 phosphate binding site [ion binding]; other site 458817005034 substrate (anthranilate) binding pocket [chemical binding]; other site 458817005035 product (indole) binding pocket [chemical binding]; other site 458817005036 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 458817005037 active site 458817005038 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 458817005039 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 458817005040 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 458817005041 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 458817005042 Glutamine amidotransferase class-I; Region: GATase; pfam00117 458817005043 glutamine binding [chemical binding]; other site 458817005044 catalytic triad [active] 458817005045 anthranilate synthase component I; Provisional; Region: PRK13564 458817005046 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 458817005047 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 458817005048 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 458817005049 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 458817005050 Nitrogen regulatory protein P-II; Region: P-II; smart00938 458817005051 FOG: CBS domain [General function prediction only]; Region: COG0517 458817005052 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_17; cd04630 458817005053 RecX family; Region: RecX; pfam02631 458817005054 RecX family; Region: RecX; pfam02631 458817005055 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 458817005056 substrate binding site [chemical binding]; other site 458817005057 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817005058 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 458817005059 conserved cys residue [active] 458817005060 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 458817005061 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 458817005062 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 458817005063 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 458817005064 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 458817005065 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 458817005066 catalytic loop [active] 458817005067 iron binding site [ion binding]; other site 458817005068 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 458817005069 FAD binding pocket [chemical binding]; other site 458817005070 FAD binding motif [chemical binding]; other site 458817005071 phosphate binding motif [ion binding]; other site 458817005072 beta-alpha-beta structure motif; other site 458817005073 NAD binding pocket [chemical binding]; other site 458817005074 Protein of unknown function (DUF445); Region: DUF445; pfam04286 458817005075 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 458817005076 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458817005077 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 458817005078 putative substrate binding pocket [chemical binding]; other site 458817005079 trimer interface [polypeptide binding]; other site 458817005080 asparagine synthetase B; Provisional; Region: asnB; PRK09431 458817005081 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 458817005082 active site 458817005083 dimer interface [polypeptide binding]; other site 458817005084 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 458817005085 Ligand Binding Site [chemical binding]; other site 458817005086 Molecular Tunnel; other site 458817005087 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 458817005088 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 458817005089 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 458817005090 PA/protease or protease-like domain interface [polypeptide binding]; other site 458817005091 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 458817005092 metal binding site [ion binding]; metal-binding site 458817005093 UMP phosphatase; Provisional; Region: PRK10444 458817005094 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 458817005095 active site 458817005096 motif I; other site 458817005097 motif II; other site 458817005098 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 458817005099 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817005100 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 458817005101 TPR motif; other site 458817005102 binding surface 458817005103 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817005104 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817005105 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817005106 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817005107 metal binding site [ion binding]; metal-binding site 458817005108 active site 458817005109 I-site; other site 458817005110 Uncharacterized conserved protein [Function unknown]; Region: COG5361 458817005111 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 458817005112 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 458817005113 voltage-gated potassium channel; Provisional; Region: PRK10537 458817005114 Ion channel; Region: Ion_trans_2; pfam07885 458817005115 TrkA-N domain; Region: TrkA_N; pfam02254 458817005116 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 458817005117 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 458817005118 active site 458817005119 substrate binding site [chemical binding]; other site 458817005120 cosubstrate binding site; other site 458817005121 catalytic site [active] 458817005122 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 458817005123 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 458817005124 dimerization interface [polypeptide binding]; other site 458817005125 putative ATP binding site [chemical binding]; other site 458817005126 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817005127 active site 458817005128 Predicted permease [General function prediction only]; Region: COG2056 458817005129 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 458817005130 peroxidase; Provisional; Region: PRK15000 458817005131 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 458817005132 dimer interface [polypeptide binding]; other site 458817005133 decamer (pentamer of dimers) interface [polypeptide binding]; other site 458817005134 catalytic triad [active] 458817005135 peroxidatic and resolving cysteines [active] 458817005136 ribonuclease T; Provisional; Region: PRK05168 458817005137 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 458817005138 active site 458817005139 catalytic site [active] 458817005140 substrate binding site [chemical binding]; other site 458817005141 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 458817005142 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817005143 ligand binding site [chemical binding]; other site 458817005144 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 458817005145 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817005146 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 458817005147 active site 458817005148 TolQ protein; Region: tolQ; TIGR02796 458817005149 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 458817005150 TolR protein; Region: tolR; TIGR02801 458817005151 TolA protein; Region: tolA_full; TIGR02794 458817005152 TolA C-terminal; Region: TolA; pfam06519 458817005153 translocation protein TolB; Provisional; Region: tolB; PRK04792 458817005154 TolB amino-terminal domain; Region: TolB_N; pfam04052 458817005155 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817005156 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817005157 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817005158 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 458817005159 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 458817005160 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817005161 ligand binding site [chemical binding]; other site 458817005162 tol-pal system protein YbgF; Provisional; Region: PRK10803 458817005163 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 458817005164 GSH binding site [chemical binding]; other site 458817005165 catalytic residues [active] 458817005166 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 458817005167 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 458817005168 ATP binding site [chemical binding]; other site 458817005169 putative Mg++ binding site [ion binding]; other site 458817005170 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 458817005171 nucleotide binding region [chemical binding]; other site 458817005172 ATP-binding site [chemical binding]; other site 458817005173 Double zinc ribbon; Region: DZR; pfam12773 458817005174 acetyl-CoA synthetase; Provisional; Region: PRK00174 458817005175 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 458817005176 active site 458817005177 CoA binding site [chemical binding]; other site 458817005178 acyl-activating enzyme (AAE) consensus motif; other site 458817005179 AMP binding site [chemical binding]; other site 458817005180 acetate binding site [chemical binding]; other site 458817005181 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 458817005182 Na binding site [ion binding]; other site 458817005183 PAS domain; Region: PAS; smart00091 458817005184 PAS fold; Region: PAS_7; pfam12860 458817005185 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817005186 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 458817005187 dimer interface [polypeptide binding]; other site 458817005188 phosphorylation site [posttranslational modification] 458817005189 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817005190 ATP binding site [chemical binding]; other site 458817005191 Mg2+ binding site [ion binding]; other site 458817005192 G-X-G motif; other site 458817005193 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 458817005194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817005195 active site 458817005196 phosphorylation site [posttranslational modification] 458817005197 intermolecular recognition site; other site 458817005198 dimerization interface [polypeptide binding]; other site 458817005199 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 458817005200 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 458817005201 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458817005202 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817005203 active site 458817005204 phosphorylation site [posttranslational modification] 458817005205 intermolecular recognition site; other site 458817005206 dimerization interface [polypeptide binding]; other site 458817005207 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 458817005208 DNA binding residues [nucleotide binding] 458817005209 dimerization interface [polypeptide binding]; other site 458817005210 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 458817005211 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 458817005212 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 458817005213 PEP synthetase regulatory protein; Provisional; Region: PRK05339 458817005214 phosphoenolpyruvate synthase; Validated; Region: PRK06464 458817005215 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 458817005216 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 458817005217 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 458817005218 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 458817005219 FAD binding domain; Region: FAD_binding_4; pfam01565 458817005220 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 458817005221 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 458817005222 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 458817005223 MarR family; Region: MarR; pfam01047 458817005224 MarR family; Region: MarR_2; cl17246 458817005225 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 458817005226 dimer interface [polypeptide binding]; other site 458817005227 putative inhibitory loop; other site 458817005228 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 458817005229 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 458817005230 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 458817005231 NAD binding site [chemical binding]; other site 458817005232 Phe binding site; other site 458817005233 adenylosuccinate lyase; Provisional; Region: PRK09285 458817005234 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 458817005235 tetramer interface [polypeptide binding]; other site 458817005236 active site 458817005237 putative lysogenization regulator; Reviewed; Region: PRK00218 458817005238 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 458817005239 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 458817005240 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 458817005241 nudix motif; other site 458817005242 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 458817005243 pseudouridine synthase; Region: TIGR00093 458817005244 probable active site [active] 458817005245 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 458817005246 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 458817005247 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 458817005248 DNA-binding site [nucleotide binding]; DNA binding site 458817005249 RNA-binding motif; other site 458817005250 Uncharacterized conserved protein [Function unknown]; Region: COG2127 458817005251 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 458817005252 Clp amino terminal domain; Region: Clp_N; pfam02861 458817005253 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817005254 Walker A motif; other site 458817005255 ATP binding site [chemical binding]; other site 458817005256 Walker B motif; other site 458817005257 arginine finger; other site 458817005258 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817005259 Walker A motif; other site 458817005260 ATP binding site [chemical binding]; other site 458817005261 Walker B motif; other site 458817005262 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 458817005263 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 458817005264 rRNA binding site [nucleotide binding]; other site 458817005265 predicted 30S ribosome binding site; other site 458817005266 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 458817005267 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 458817005268 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 458817005269 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 458817005270 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 458817005271 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 458817005272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817005273 DNA-binding site [nucleotide binding]; DNA binding site 458817005274 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 458817005275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817005276 homodimer interface [polypeptide binding]; other site 458817005277 catalytic residue [active] 458817005278 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 458817005279 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 458817005280 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 458817005281 putative GSH binding site (G-site) [chemical binding]; other site 458817005282 active site cysteine [active] 458817005283 putative C-terminal domain interface [polypeptide binding]; other site 458817005284 putative dimer interface [polypeptide binding]; other site 458817005285 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 458817005286 putative N-terminal domain interface [polypeptide binding]; other site 458817005287 putative dimer interface [polypeptide binding]; other site 458817005288 putative substrate binding pocket (H-site) [chemical binding]; other site 458817005289 putative chaperone; Provisional; Region: PRK11678 458817005290 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 458817005291 nucleotide binding site [chemical binding]; other site 458817005292 putative NEF/HSP70 interaction site [polypeptide binding]; other site 458817005293 SBD interface [polypeptide binding]; other site 458817005294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 458817005295 CreA protein; Region: CreA; pfam05981 458817005296 cystathionine beta-lyase; Provisional; Region: PRK09028 458817005297 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 458817005298 homodimer interface [polypeptide binding]; other site 458817005299 substrate-cofactor binding pocket; other site 458817005300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817005301 catalytic residue [active] 458817005302 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 458817005303 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 458817005304 putative ligand binding site [chemical binding]; other site 458817005305 HAMP domain; Region: HAMP; pfam00672 458817005306 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 458817005307 dimer interface [polypeptide binding]; other site 458817005308 phosphorylation site [posttranslational modification] 458817005309 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817005310 ATP binding site [chemical binding]; other site 458817005311 Mg2+ binding site [ion binding]; other site 458817005312 G-X-G motif; other site 458817005313 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 458817005314 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817005315 active site 458817005316 phosphorylation site [posttranslational modification] 458817005317 intermolecular recognition site; other site 458817005318 dimerization interface [polypeptide binding]; other site 458817005319 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 458817005320 DNA binding site [nucleotide binding] 458817005321 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 458817005322 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817005323 ligand binding site [chemical binding]; other site 458817005324 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 458817005325 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 458817005326 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 458817005327 metal ion-dependent adhesion site (MIDAS); other site 458817005328 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 458817005329 active site 458817005330 catalytic site [active] 458817005331 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817005332 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817005333 metal binding site [ion binding]; metal-binding site 458817005334 active site 458817005335 I-site; other site 458817005336 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 458817005337 DNA ligase; Provisional; Region: PRK09125 458817005338 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 458817005339 DNA binding site [nucleotide binding] 458817005340 active site 458817005341 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 458817005342 DNA binding site [nucleotide binding] 458817005343 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 458817005344 dimer interface [polypeptide binding]; other site 458817005345 FMN binding site [chemical binding]; other site 458817005346 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 458817005347 Part of AAA domain; Region: AAA_19; pfam13245 458817005348 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 458817005349 AAA domain; Region: AAA_12; pfam13087 458817005350 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 458817005351 putative active site [active] 458817005352 YecR-like lipoprotein; Region: YecR; pfam13992 458817005353 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 458817005354 G1 box; other site 458817005355 GTP/Mg2+ binding site [chemical binding]; other site 458817005356 G2 box; other site 458817005357 Switch I region; other site 458817005358 G3 box; other site 458817005359 Switch II region; other site 458817005360 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 458817005361 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 458817005362 GTP/Mg2+ binding site [chemical binding]; other site 458817005363 G5 box; other site 458817005364 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 458817005365 G1 box; other site 458817005366 G1 box; other site 458817005367 GTP/Mg2+ binding site [chemical binding]; other site 458817005368 Switch I region; other site 458817005369 G2 box; other site 458817005370 G2 box; other site 458817005371 Switch I region; other site 458817005372 G3 box; other site 458817005373 G3 box; other site 458817005374 Switch II region; other site 458817005375 Switch II region; other site 458817005376 G4 box; other site 458817005377 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 458817005378 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 458817005379 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 458817005380 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 458817005381 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 458817005382 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 458817005383 Nuclease-related domain; Region: NERD; pfam08378 458817005384 Family description; Region: UvrD_C_2; pfam13538 458817005385 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 458817005386 Low molecular weight phosphatase family; Region: LMWPc; cd00115 458817005387 active site 458817005388 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 458817005389 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 458817005390 HflX GTPase family; Region: HflX; cd01878 458817005391 G1 box; other site 458817005392 GTP/Mg2+ binding site [chemical binding]; other site 458817005393 Switch I region; other site 458817005394 G2 box; other site 458817005395 G3 box; other site 458817005396 Switch II region; other site 458817005397 G4 box; other site 458817005398 G5 box; other site 458817005399 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 458817005400 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 458817005401 GTP/Mg2+ binding site [chemical binding]; other site 458817005402 G4 box; other site 458817005403 G5 box; other site 458817005404 G1 box; other site 458817005405 Switch I region; other site 458817005406 G2 box; other site 458817005407 G3 box; other site 458817005408 Switch II region; other site 458817005409 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 458817005410 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 458817005411 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 458817005412 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 458817005413 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 458817005414 methionine sulfoxide reductase A; Provisional; Region: PRK14054 458817005415 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 458817005416 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 458817005417 Sulfate transporter family; Region: Sulfate_transp; pfam00916 458817005418 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 458817005419 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 458817005420 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 458817005421 homodimer interface [polypeptide binding]; other site 458817005422 oligonucleotide binding site [chemical binding]; other site 458817005423 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 458817005424 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 458817005425 RNA binding surface [nucleotide binding]; other site 458817005426 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 458817005427 active site 458817005428 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 458817005429 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 458817005430 motif II; other site 458817005431 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 458817005432 active site 458817005433 dimer interface [polypeptide binding]; other site 458817005434 hypothetical protein; Provisional; Region: PRK11193 458817005435 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 458817005436 putative phosphate acyltransferase; Provisional; Region: PRK05331 458817005437 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 458817005438 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 458817005439 dimer interface [polypeptide binding]; other site 458817005440 active site 458817005441 CoA binding pocket [chemical binding]; other site 458817005442 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 458817005443 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 458817005444 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 458817005445 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 458817005446 NAD(P) binding site [chemical binding]; other site 458817005447 homotetramer interface [polypeptide binding]; other site 458817005448 homodimer interface [polypeptide binding]; other site 458817005449 active site 458817005450 acyl carrier protein; Provisional; Region: acpP; PRK00982 458817005451 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 458817005452 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 458817005453 dimer interface [polypeptide binding]; other site 458817005454 active site 458817005455 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 458817005456 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 458817005457 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 458817005458 cytidine deaminase; Provisional; Region: PRK09027 458817005459 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 458817005460 active site 458817005461 catalytic motif [active] 458817005462 Zn binding site [ion binding]; other site 458817005463 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 458817005464 exonuclease I; Provisional; Region: sbcB; PRK11779 458817005465 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 458817005466 active site 458817005467 catalytic site [active] 458817005468 substrate binding site [chemical binding]; other site 458817005469 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 458817005470 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 458817005471 active site 458817005472 Int/Topo IB signature motif; other site 458817005473 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 458817005474 homodimer interface [polypeptide binding]; other site 458817005475 chemical substrate binding site [chemical binding]; other site 458817005476 oligomer interface [polypeptide binding]; other site 458817005477 metal binding site [ion binding]; metal-binding site 458817005478 EVE domain; Region: EVE; cl00728 458817005479 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 458817005480 active site 458817005481 Uncharacterized conserved protein [Function unknown]; Region: COG4127 458817005482 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 458817005483 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 458817005484 catalytic residues [active] 458817005485 catalytic nucleophile [active] 458817005486 Presynaptic Site I dimer interface [polypeptide binding]; other site 458817005487 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 458817005488 Synaptic Flat tetramer interface [polypeptide binding]; other site 458817005489 Synaptic Site I dimer interface [polypeptide binding]; other site 458817005490 DNA binding site [nucleotide binding] 458817005491 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 458817005492 active site 458817005493 NTP binding site [chemical binding]; other site 458817005494 metal binding triad [ion binding]; metal-binding site 458817005495 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 458817005496 ThiF family; Region: ThiF; pfam00899 458817005497 ATP binding site [chemical binding]; other site 458817005498 substrate interface [chemical binding]; other site 458817005499 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 458817005500 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 458817005501 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 458817005502 S-adenosylmethionine binding site [chemical binding]; other site 458817005503 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 458817005504 DNA-binding site [nucleotide binding]; DNA binding site 458817005505 RNA-binding motif; other site 458817005506 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458817005507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817005508 Walker A/P-loop; other site 458817005509 ATP binding site [chemical binding]; other site 458817005510 Q-loop/lid; other site 458817005511 ABC transporter signature motif; other site 458817005512 Walker B; other site 458817005513 D-loop; other site 458817005514 H-loop/switch region; other site 458817005515 hypothetical protein; Provisional; Region: PRK11239 458817005516 Protein of unknown function, DUF480; Region: DUF480; pfam04337 458817005517 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 458817005518 S1 domain; Region: S1_2; pfam13509 458817005519 S1 domain; Region: S1_2; pfam13509 458817005520 arginine decarboxylase; Provisional; Region: PRK05354 458817005521 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 458817005522 dimer interface [polypeptide binding]; other site 458817005523 active site 458817005524 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458817005525 catalytic residues [active] 458817005526 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 458817005527 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 458817005528 agmatinase; Region: agmatinase; TIGR01230 458817005529 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 458817005530 oligomer interface [polypeptide binding]; other site 458817005531 putative active site [active] 458817005532 Mn binding site [ion binding]; other site 458817005533 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 458817005534 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 458817005535 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 458817005536 YceI-like domain; Region: YceI; pfam04264 458817005537 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 458817005538 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 458817005539 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 458817005540 Cache domain; Region: Cache_1; pfam02743 458817005541 PAS domain S-box; Region: sensory_box; TIGR00229 458817005542 PAS domain; Region: PAS; smart00091 458817005543 Histidine kinase-like ATPases; This family includes several ATP-binding 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 458817005544 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817005545 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817005546 dimer interface [polypeptide binding]; other site 458817005547 putative CheW interface [polypeptide binding]; other site 458817005548 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 458817005549 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 458817005550 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 458817005551 dimer interface [polypeptide binding]; other site 458817005552 motif 1; other site 458817005553 active site 458817005554 motif 2; other site 458817005555 motif 3; other site 458817005556 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 458817005557 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 458817005558 putative tRNA-binding site [nucleotide binding]; other site 458817005559 B3/4 domain; Region: B3_4; pfam03483 458817005560 tRNA synthetase B5 domain; Region: B5; smart00874 458817005561 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 458817005562 dimer interface [polypeptide binding]; other site 458817005563 motif 1; other site 458817005564 motif 3; other site 458817005565 motif 2; other site 458817005566 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 458817005567 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 458817005568 IHF dimer interface [polypeptide binding]; other site 458817005569 IHF - DNA interface [nucleotide binding]; other site 458817005570 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 458817005571 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 458817005572 putative acyl-acceptor binding pocket; other site 458817005573 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 458817005574 ATP binding site [chemical binding]; other site 458817005575 active site 458817005576 substrate binding site [chemical binding]; other site 458817005577 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 458817005578 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 458817005579 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 458817005580 metal binding site [ion binding]; metal-binding site 458817005581 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 458817005582 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 458817005583 substrate binding site [chemical binding]; other site 458817005584 glutamase interaction surface [polypeptide binding]; other site 458817005585 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 458817005586 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 458817005587 catalytic residues [active] 458817005588 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 458817005589 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 458817005590 putative active site [active] 458817005591 oxyanion strand; other site 458817005592 catalytic triad [active] 458817005593 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 458817005594 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 458817005595 active site 458817005596 motif I; other site 458817005597 motif II; other site 458817005598 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 458817005599 putative active site pocket [active] 458817005600 4-fold oligomerization interface [polypeptide binding]; other site 458817005601 metal binding residues [ion binding]; metal-binding site 458817005602 3-fold/trimer interface [polypeptide binding]; other site 458817005603 histidinol-phosphate aminotransferase; Provisional; Region: PRK04635 458817005604 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 458817005605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817005606 homodimer interface [polypeptide binding]; other site 458817005607 catalytic residue [active] 458817005608 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 458817005609 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 458817005610 NAD binding site [chemical binding]; other site 458817005611 dimerization interface [polypeptide binding]; other site 458817005612 product binding site; other site 458817005613 substrate binding site [chemical binding]; other site 458817005614 zinc binding site [ion binding]; other site 458817005615 catalytic residues [active] 458817005616 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 458817005617 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 458817005618 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 458817005619 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 458817005620 DEAD/DEAH box helicase; Region: DEAD; pfam00270 458817005621 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 458817005622 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 458817005623 Glycoprotease family; Region: Peptidase_M22; pfam00814 458817005624 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 458817005625 Predicted methyltransferase [General function prediction only]; Region: COG4798 458817005626 Methyltransferase domain; Region: Methyltransf_23; pfam13489 458817005627 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 458817005628 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 458817005629 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 458817005630 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 458817005631 acyl-activating enzyme (AAE) consensus motif; other site 458817005632 putative AMP binding site [chemical binding]; other site 458817005633 putative active site [active] 458817005634 putative CoA binding site [chemical binding]; other site 458817005635 ribonuclease D; Provisional; Region: PRK10829 458817005636 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 458817005637 catalytic site [active] 458817005638 putative active site [active] 458817005639 putative substrate binding site [chemical binding]; other site 458817005640 HRDC domain; Region: HRDC; pfam00570 458817005641 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 458817005642 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 458817005643 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 458817005644 Switch I; other site 458817005645 Switch II; other site 458817005646 septum formation inhibitor; Reviewed; Region: minC; PRK04804 458817005647 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 458817005648 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 458817005649 YcgL domain; Region: YcgL; pfam05166 458817005650 Transglycosylase SLT domain; Region: SLT_2; pfam13406 458817005651 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 458817005652 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817005653 catalytic residue [active] 458817005654 hypothetical protein; Provisional; Region: PRK05170 458817005655 disulfide bond formation protein B; Provisional; Region: PRK01749 458817005656 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 458817005657 fatty acid metabolism regulator; Provisional; Region: PRK04984 458817005658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817005659 DNA-binding site [nucleotide binding]; DNA binding site 458817005660 FadR C-terminal domain; Region: FadR_C; pfam07840 458817005661 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 458817005662 Family of unknown function (DUF490); Region: DUF490; pfam04357 458817005663 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 458817005664 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 458817005665 Surface antigen; Region: Bac_surface_Ag; pfam01103 458817005666 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 458817005667 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 458817005668 catalytic nucleophile [active] 458817005669 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817005670 active site 458817005671 FOG: CBS domain [General function prediction only]; Region: COG0517 458817005672 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_16; cd04629 458817005673 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 458817005674 active site 458817005675 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817005676 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817005677 metal binding site [ion binding]; metal-binding site 458817005678 active site 458817005679 I-site; other site 458817005680 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 458817005681 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 458817005682 ATP binding site [chemical binding]; other site 458817005683 putative Mg++ binding site [ion binding]; other site 458817005684 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 458817005685 nucleotide binding region [chemical binding]; other site 458817005686 ATP-binding site [chemical binding]; other site 458817005687 Helicase associated domain (HA2); Region: HA2; pfam04408 458817005688 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 458817005689 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 458817005690 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 458817005691 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 458817005692 substrate binding pocket [chemical binding]; other site 458817005693 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817005694 membrane-bound complex binding site; other site 458817005695 hinge residues; other site 458817005696 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 458817005697 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 458817005698 ATP-grasp domain; Region: ATP-grasp_4; cl17255 458817005699 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 458817005700 AAA domain; Region: AAA_30; pfam13604 458817005701 Family description; Region: UvrD_C_2; pfam13538 458817005702 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 458817005703 Part of AAA domain; Region: AAA_19; pfam13245 458817005704 Family description; Region: UvrD_C_2; pfam13538 458817005705 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 458817005706 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 458817005707 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 458817005708 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 458817005709 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 458817005710 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 458817005711 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 458817005712 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 458817005713 Protein of unknown function DUF58; Region: DUF58; pfam01882 458817005714 MoxR-like ATPases [General function prediction only]; Region: COG0714 458817005715 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817005716 Walker A motif; other site 458817005717 ATP binding site [chemical binding]; other site 458817005718 Walker B motif; other site 458817005719 arginine finger; other site 458817005720 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 458817005721 lytic murein transglycosylase; Provisional; Region: PRK11619 458817005722 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 458817005723 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817005724 catalytic residue [active] 458817005725 RmuC family; Region: RmuC; pfam02646 458817005726 TMAO/DMSO reductase; Reviewed; Region: PRK05363 458817005727 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 458817005728 Moco binding site; other site 458817005729 metal coordination site [ion binding]; other site 458817005730 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 458817005731 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 458817005732 AsmA family; Region: AsmA; pfam05170 458817005733 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 458817005734 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 458817005735 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 458817005736 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817005737 catalytic residue [active] 458817005738 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458817005739 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458817005740 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 458817005741 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 458817005742 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 458817005743 Methyltransferase domain; Region: Methyltransf_11; pfam08241 458817005744 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 458817005745 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817005746 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 458817005747 putative dimerization interface [polypeptide binding]; other site 458817005748 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 458817005749 RNA/DNA hybrid binding site [nucleotide binding]; other site 458817005750 active site 458817005751 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 458817005752 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 458817005753 active site 458817005754 catalytic site [active] 458817005755 substrate binding site [chemical binding]; other site 458817005756 TIGR03503 family protein; Region: TIGR03503 458817005757 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 458817005758 TrkA-N domain; Region: TrkA_N; pfam02254 458817005759 Helix-turn-helix domain; Region: HTH_28; pfam13518 458817005760 Winged helix-turn helix; Region: HTH_29; pfam13551 458817005761 Homeodomain-like domain; Region: HTH_32; pfam13565 458817005762 Integrase core domain; Region: rve; pfam00665 458817005763 Helix-turn-helix domain; Region: HTH_28; pfam13518 458817005764 Winged helix-turn helix; Region: HTH_29; pfam13551 458817005765 Homeodomain-like domain; Region: HTH_32; pfam13565 458817005766 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 458817005767 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 458817005768 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 458817005769 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 458817005770 putative active site [active] 458817005771 metal binding site [ion binding]; metal-binding site 458817005772 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817005773 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817005774 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 458817005775 Sulfatase; Region: Sulfatase; pfam00884 458817005776 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 458817005777 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 458817005778 FeS/SAM binding site; other site 458817005779 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 458817005780 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 458817005781 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 458817005782 heme binding site [chemical binding]; other site 458817005783 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 458817005784 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 458817005785 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 458817005786 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 458817005787 active site 458817005788 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 458817005789 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 458817005790 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 458817005791 putative active site [active] 458817005792 putative dimer interface [polypeptide binding]; other site 458817005793 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 458817005794 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 458817005795 active site 458817005796 DNA binding site [nucleotide binding] 458817005797 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817005798 putative substrate translocation pore; other site 458817005799 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 458817005800 active site 458817005801 catalytic residues [active] 458817005802 metal binding site [ion binding]; metal-binding site 458817005803 DTW domain; Region: DTW; cl01221 458817005804 Haemolysin-III related; Region: HlyIII; cl03831 458817005805 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 458817005806 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 458817005807 ThiC-associated domain; Region: ThiC-associated; pfam13667 458817005808 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 458817005809 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 458817005810 dimer interface [polypeptide binding]; other site 458817005811 substrate binding site [chemical binding]; other site 458817005812 ATP binding site [chemical binding]; other site 458817005813 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 458817005814 thiamine phosphate binding site [chemical binding]; other site 458817005815 active site 458817005816 pyrophosphate binding site [ion binding]; other site 458817005817 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 458817005818 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 458817005819 ATP binding site [chemical binding]; other site 458817005820 substrate interface [chemical binding]; other site 458817005821 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 458817005822 thiS-thiF/thiG interaction site; other site 458817005823 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 458817005824 ThiS interaction site; other site 458817005825 putative active site [active] 458817005826 tetramer interface [polypeptide binding]; other site 458817005827 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 458817005828 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 458817005829 FeS/SAM binding site; other site 458817005830 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 458817005831 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 458817005832 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817005833 active site 458817005834 phosphorylation site [posttranslational modification] 458817005835 intermolecular recognition site; other site 458817005836 dimerization interface [polypeptide binding]; other site 458817005837 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 458817005838 dimer interface [polypeptide binding]; other site 458817005839 phosphorylation site [posttranslational modification] 458817005840 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817005841 ATP binding site [chemical binding]; other site 458817005842 Mg2+ binding site [ion binding]; other site 458817005843 G-X-G motif; other site 458817005844 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 458817005845 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817005846 active site 458817005847 phosphorylation site [posttranslational modification] 458817005848 intermolecular recognition site; other site 458817005849 dimerization interface [polypeptide binding]; other site 458817005850 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 458817005851 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458817005852 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 458817005853 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 458817005854 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 458817005855 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 458817005856 Methyltransferase domain; Region: Methyltransf_31; pfam13847 458817005857 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 458817005858 S-adenosylmethionine binding site [chemical binding]; other site 458817005859 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 458817005860 S-adenosylmethionine binding site [chemical binding]; other site 458817005861 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817005862 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 458817005863 substrate binding pocket [chemical binding]; other site 458817005864 membrane-bound complex binding site; other site 458817005865 hinge residues; other site 458817005866 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817005867 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 458817005868 substrate binding pocket [chemical binding]; other site 458817005869 membrane-bound complex binding site; other site 458817005870 hinge residues; other site 458817005871 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 458817005872 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817005873 substrate binding pocket [chemical binding]; other site 458817005874 membrane-bound complex binding site; other site 458817005875 hinge residues; other site 458817005876 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817005877 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817005878 metal binding site [ion binding]; metal-binding site 458817005879 active site 458817005880 I-site; other site 458817005881 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 458817005882 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 458817005883 dimer interface [polypeptide binding]; other site 458817005884 anticodon binding site; other site 458817005885 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 458817005886 homodimer interface [polypeptide binding]; other site 458817005887 motif 1; other site 458817005888 active site 458817005889 motif 2; other site 458817005890 GAD domain; Region: GAD; pfam02938 458817005891 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 458817005892 active site 458817005893 motif 3; other site 458817005894 hypothetical protein; Validated; Region: PRK00110 458817005895 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 458817005896 active site 458817005897 putative DNA-binding cleft [nucleotide binding]; other site 458817005898 dimer interface [polypeptide binding]; other site 458817005899 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 458817005900 RuvA N terminal domain; Region: RuvA_N; pfam01330 458817005901 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 458817005902 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 458817005903 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817005904 Walker A motif; other site 458817005905 ATP binding site [chemical binding]; other site 458817005906 Walker B motif; other site 458817005907 arginine finger; other site 458817005908 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 458817005909 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 458817005910 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 458817005911 N-terminal plug; other site 458817005912 ligand-binding site [chemical binding]; other site 458817005913 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458817005914 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 458817005915 dimer interface [polypeptide binding]; other site 458817005916 active site 458817005917 metal binding site [ion binding]; metal-binding site 458817005918 glutathione binding site [chemical binding]; other site 458817005919 endonuclease III; Provisional; Region: PRK10702 458817005920 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 458817005921 minor groove reading motif; other site 458817005922 helix-hairpin-helix signature motif; other site 458817005923 substrate binding pocket [chemical binding]; other site 458817005924 active site 458817005925 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 458817005926 electron transport complex RsxE subunit; Provisional; Region: PRK12405 458817005927 electron transport complex protein RnfG; Validated; Region: PRK01908 458817005928 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 458817005929 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 458817005930 SLBB domain; Region: SLBB; pfam10531 458817005931 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 458817005932 electron transport complex protein RnfB; Provisional; Region: PRK05113 458817005933 Putative Fe-S cluster; Region: FeS; pfam04060 458817005934 4Fe-4S binding domain; Region: Fer4; cl02805 458817005935 electron transport complex protein RsxA; Provisional; Region: PRK05151 458817005936 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817005937 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817005938 metal binding site [ion binding]; metal-binding site 458817005939 active site 458817005940 I-site; other site 458817005941 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 458817005942 excinuclease ABC subunit B; Provisional; Region: PRK05298 458817005943 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 458817005944 ATP binding site [chemical binding]; other site 458817005945 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 458817005946 nucleotide binding region [chemical binding]; other site 458817005947 ATP-binding site [chemical binding]; other site 458817005948 Ultra-violet resistance protein B; Region: UvrB; pfam12344 458817005949 UvrB/uvrC motif; Region: UVR; pfam02151 458817005950 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 458817005951 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 458817005952 Ligand Binding Site [chemical binding]; other site 458817005953 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 458817005954 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 458817005955 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 458817005956 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 458817005957 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817005958 catalytic residue [active] 458817005959 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 458817005960 Protein of unknown function (DUF406); Region: DUF406; pfam04175 458817005961 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 458817005962 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 458817005963 PAS domain; Region: PAS_9; pfam13426 458817005964 putative active site [active] 458817005965 heme pocket [chemical binding]; other site 458817005966 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817005967 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817005968 metal binding site [ion binding]; metal-binding site 458817005969 active site 458817005970 I-site; other site 458817005971 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 458817005972 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 458817005973 SEC-C motif; Region: SEC-C; pfam02810 458817005974 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 458817005975 SnoaL-like domain; Region: SnoaL_3; pfam13474 458817005976 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 458817005977 Smr domain; Region: Smr; pfam01713 458817005978 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817005979 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817005980 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 458817005981 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817005982 active site 458817005983 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 458817005984 pyruvate kinase; Provisional; Region: PRK05826 458817005985 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 458817005986 domain interfaces; other site 458817005987 active site 458817005988 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 458817005989 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 458817005990 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 458817005991 putative active site [active] 458817005992 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 458817005993 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 458817005994 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 458817005995 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 458817005996 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 458817005997 putative active site [active] 458817005998 phosphogluconate dehydratase; Validated; Region: PRK09054 458817005999 6-phosphogluconate dehydratase; Region: edd; TIGR01196 458817006000 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 458817006001 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 458817006002 active site 458817006003 intersubunit interface [polypeptide binding]; other site 458817006004 catalytic residue [active] 458817006005 ecotin; Provisional; Region: PRK03719 458817006006 secondary substrate binding site; other site 458817006007 primary substrate binding site; other site 458817006008 inhibition loop; other site 458817006009 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 458817006010 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 458817006011 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 458817006012 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 458817006013 putative Zn2+ binding site [ion binding]; other site 458817006014 putative DNA binding site [nucleotide binding]; other site 458817006015 putative metal dependent hydrolase; Provisional; Region: PRK11598 458817006016 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 458817006017 Sulfatase; Region: Sulfatase; pfam00884 458817006018 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817006019 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817006020 metal binding site [ion binding]; metal-binding site 458817006021 active site 458817006022 I-site; other site 458817006023 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 458817006024 CoA binding domain; Region: CoA_binding_2; pfam13380 458817006025 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 458817006026 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 458817006027 Transcriptional regulators [Transcription]; Region: GntR; COG1802 458817006028 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817006029 DNA-binding site [nucleotide binding]; DNA binding site 458817006030 FCD domain; Region: FCD; pfam07729 458817006031 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 458817006032 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 458817006033 tetramer interface [polypeptide binding]; other site 458817006034 active site 458817006035 Mg2+/Mn2+ binding site [ion binding]; other site 458817006036 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 458817006037 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 458817006038 dimer interface [polypeptide binding]; other site 458817006039 active site 458817006040 citrylCoA binding site [chemical binding]; other site 458817006041 oxalacetate/citrate binding site [chemical binding]; other site 458817006042 coenzyme A binding site [chemical binding]; other site 458817006043 catalytic triad [active] 458817006044 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 458817006045 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 458817006046 substrate binding site [chemical binding]; other site 458817006047 ligand binding site [chemical binding]; other site 458817006048 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 458817006049 substrate binding site [chemical binding]; other site 458817006050 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 458817006051 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 458817006052 Methyltransferase domain; Region: Methyltransf_18; pfam12847 458817006053 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 458817006054 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 458817006055 active site 458817006056 REJ domain; Region: REJ; pfam02010 458817006057 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458817006058 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 458817006059 DNA binding residues [nucleotide binding] 458817006060 dimerization interface [polypeptide binding]; other site 458817006061 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 458817006062 EF-hand domain pair; Region: EF_hand_5; pfam13499 458817006063 Ca2+ binding site [ion binding]; other site 458817006064 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817006065 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817006066 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 458817006067 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817006068 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817006069 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817006070 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817006071 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 458817006072 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 458817006073 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 458817006074 metal ion-dependent adhesion site (MIDAS); other site 458817006075 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 458817006076 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 458817006077 DNA binding residues [nucleotide binding] 458817006078 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 458817006079 active site 458817006080 catalytic residues [active] 458817006081 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 458817006082 PA/protease or protease-like domain interface [polypeptide binding]; other site 458817006083 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 458817006084 catalytic residues [active] 458817006085 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458817006086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817006087 active site 458817006088 phosphorylation site [posttranslational modification] 458817006089 intermolecular recognition site; other site 458817006090 dimerization interface [polypeptide binding]; other site 458817006091 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 458817006092 DNA binding residues [nucleotide binding] 458817006093 dimerization interface [polypeptide binding]; other site 458817006094 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 458817006095 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 458817006096 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 458817006097 Histidine kinase; Region: HisKA_3; pfam07730 458817006098 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 458817006099 active site 458817006100 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 458817006101 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 458817006102 C-terminal domain interface [polypeptide binding]; other site 458817006103 GSH binding site (G-site) [chemical binding]; other site 458817006104 dimer interface [polypeptide binding]; other site 458817006105 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 458817006106 dimer interface [polypeptide binding]; other site 458817006107 N-terminal domain interface [polypeptide binding]; other site 458817006108 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 458817006109 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 458817006110 Phasin protein; Region: Phasin_2; cl11491 458817006111 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 458817006112 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 458817006113 (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 458817006114 dimer interaction site [polypeptide binding]; other site 458817006115 substrate-binding tunnel; other site 458817006116 active site 458817006117 catalytic site [active] 458817006118 substrate binding site [chemical binding]; other site 458817006119 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 458817006120 EF-hand domain pair; Region: EF_hand_5; pfam13499 458817006121 Ca2+ binding site [ion binding]; other site 458817006122 Predicted membrane protein [Function unknown]; Region: COG1289 458817006123 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 458817006124 Eukaryotic Glutathione Synthetase (eu-GS); catalyses the production of glutathione from gamma-glutamylcysteine and glycine in an ATP-dependent manner. Belongs to the ATP-grasp superfamily; Region: eu-GS; cl00170 458817006125 glutathione (GSH) binding pocket [chemical binding]; other site 458817006126 active site residues [active] 458817006127 ATP binding pocket [chemical binding]; other site 458817006128 magnesium binding site [ion binding]; other site 458817006129 glycine rich loop; other site 458817006130 alanine rich loop; other site 458817006131 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 458817006132 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 458817006133 Domain of unknown function DUF20; Region: UPF0118; pfam01594 458817006134 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 458817006135 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817006136 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 458817006137 Transposase; Region: DEDD_Tnp_IS110; pfam01548 458817006138 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 458817006139 Part of AAA domain; Region: AAA_19; pfam13245 458817006140 Family description; Region: UvrD_C_2; pfam13538 458817006141 excinuclease ABC subunit B; Provisional; Region: PRK05298 458817006142 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 458817006143 ATP binding site [chemical binding]; other site 458817006144 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 458817006145 nucleotide binding region [chemical binding]; other site 458817006146 ATP-binding site [chemical binding]; other site 458817006147 Ultra-violet resistance protein B; Region: UvrB; pfam12344 458817006148 Phospholipase A1; Region: PLA1; pfam02253 458817006149 dimerization interface [polypeptide binding]; other site 458817006150 substrate binding site [chemical binding]; other site 458817006151 active site 458817006152 calcium binding site [ion binding]; other site 458817006153 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 458817006154 trimer interface [polypeptide binding]; other site 458817006155 active site 458817006156 substrate binding site [chemical binding]; other site 458817006157 CoA binding site [chemical binding]; other site 458817006158 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 458817006159 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817006160 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817006161 Walker A/P-loop; other site 458817006162 ATP binding site [chemical binding]; other site 458817006163 ABC transporter signature motif; other site 458817006164 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817006165 Walker B; other site 458817006166 ABC transporter; Region: ABC_tran_2; pfam12848 458817006167 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817006168 Transcriptional regulators [Transcription]; Region: PurR; COG1609 458817006169 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 458817006170 DNA binding site [nucleotide binding] 458817006171 domain linker motif; other site 458817006172 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 458817006173 dimerization interface [polypeptide binding]; other site 458817006174 ligand binding site [chemical binding]; other site 458817006175 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 458817006176 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 458817006177 inhibitor binding site; inhibition site 458817006178 catalytic Zn binding site [ion binding]; other site 458817006179 structural Zn binding site [ion binding]; other site 458817006180 NADP binding site [chemical binding]; other site 458817006181 tetramer interface [polypeptide binding]; other site 458817006182 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 458817006183 N- and C-terminal domain interface [polypeptide binding]; other site 458817006184 D-xylulose kinase; Region: XylB; TIGR01312 458817006185 active site 458817006186 MgATP binding site [chemical binding]; other site 458817006187 catalytic site [active] 458817006188 metal binding site [ion binding]; metal-binding site 458817006189 xylulose binding site [chemical binding]; other site 458817006190 putative homodimer interface [polypeptide binding]; other site 458817006191 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 458817006192 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 458817006193 Walker A/P-loop; other site 458817006194 ATP binding site [chemical binding]; other site 458817006195 Q-loop/lid; other site 458817006196 ABC transporter signature motif; other site 458817006197 Walker B; other site 458817006198 D-loop; other site 458817006199 H-loop/switch region; other site 458817006200 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 458817006201 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 458817006202 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 458817006203 TM-ABC transporter signature motif; other site 458817006204 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 458817006205 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 458817006206 putative ligand binding site [chemical binding]; other site 458817006207 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 458817006208 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 458817006209 multidrug efflux protein; Reviewed; Region: PRK01766 458817006210 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 458817006211 cation binding site [ion binding]; other site 458817006212 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 458817006213 Lumazine binding domain; Region: Lum_binding; pfam00677 458817006214 Lumazine binding domain; Region: Lum_binding; pfam00677 458817006215 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 458817006216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006217 pteridine reductase; Provisional; Region: PRK09135 458817006218 NAD(P) binding site [chemical binding]; other site 458817006219 active site 458817006220 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 458817006221 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 458817006222 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 458817006223 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 458817006224 active site 458817006225 dimer interface [polypeptide binding]; other site 458817006226 motif 1; other site 458817006227 motif 2; other site 458817006228 motif 3; other site 458817006229 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 458817006230 anticodon binding site; other site 458817006231 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 458817006232 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 458817006233 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 458817006234 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 458817006235 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 458817006236 23S rRNA binding site [nucleotide binding]; other site 458817006237 L21 binding site [polypeptide binding]; other site 458817006238 L13 binding site [polypeptide binding]; other site 458817006239 thioredoxin reductase; Provisional; Region: PRK10262 458817006240 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458817006241 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817006242 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 458817006243 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 458817006244 putative active site [active] 458817006245 Zn binding site [ion binding]; other site 458817006246 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 458817006247 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 458817006248 active site 458817006249 homodimer interface [polypeptide binding]; other site 458817006250 protease 4; Provisional; Region: PRK10949 458817006251 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 458817006252 tandem repeat interface [polypeptide binding]; other site 458817006253 oligomer interface [polypeptide binding]; other site 458817006254 active site residues [active] 458817006255 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 458817006256 tandem repeat interface [polypeptide binding]; other site 458817006257 oligomer interface [polypeptide binding]; other site 458817006258 active site residues [active] 458817006259 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 458817006260 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 458817006261 active site 458817006262 FMN binding site [chemical binding]; other site 458817006263 2,4-decadienoyl-CoA binding site; other site 458817006264 catalytic residue [active] 458817006265 4Fe-4S cluster binding site [ion binding]; other site 458817006266 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 458817006267 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458817006268 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 458817006269 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 458817006270 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 458817006271 catalytic loop [active] 458817006272 iron binding site [ion binding]; other site 458817006273 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 458817006274 dimer interface [polypeptide binding]; other site 458817006275 putative radical transfer pathway; other site 458817006276 diiron center [ion binding]; other site 458817006277 tyrosyl radical; other site 458817006278 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 458817006279 ATP cone domain; Region: ATP-cone; pfam03477 458817006280 Class I ribonucleotide reductase; Region: RNR_I; cd01679 458817006281 active site 458817006282 dimer interface [polypeptide binding]; other site 458817006283 catalytic residues [active] 458817006284 effector binding site; other site 458817006285 R2 peptide binding site; other site 458817006286 phosphoglycolate phosphatase; Provisional; Region: PRK13222 458817006287 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 458817006288 motif II; other site 458817006289 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 458817006290 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 458817006291 S-adenosylmethionine binding site [chemical binding]; other site 458817006292 DNA gyrase subunit A; Validated; Region: PRK05560 458817006293 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 458817006294 CAP-like domain; other site 458817006295 active site 458817006296 primary dimer interface [polypeptide binding]; other site 458817006297 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458817006298 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458817006299 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458817006300 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458817006301 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458817006302 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 458817006303 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 458817006304 Beta-lactamase; Region: Beta-lactamase; pfam00144 458817006305 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 458817006306 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817006307 catalytic residue [active] 458817006308 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 458817006309 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 458817006310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817006311 homodimer interface [polypeptide binding]; other site 458817006312 catalytic residue [active] 458817006313 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 458817006314 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 458817006315 hinge; other site 458817006316 active site 458817006317 cytidylate kinase; Provisional; Region: cmk; PRK00023 458817006318 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 458817006319 CMP-binding site; other site 458817006320 The sites determining sugar specificity; other site 458817006321 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 458817006322 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 458817006323 RNA binding site [nucleotide binding]; other site 458817006324 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 458817006325 RNA binding site [nucleotide binding]; other site 458817006326 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 458817006327 RNA binding site [nucleotide binding]; other site 458817006328 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 458817006329 RNA binding site [nucleotide binding]; other site 458817006330 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 458817006331 RNA binding site [nucleotide binding]; other site 458817006332 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 458817006333 RNA binding site [nucleotide binding]; other site 458817006334 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 458817006335 IHF dimer interface [polypeptide binding]; other site 458817006336 IHF - DNA interface [nucleotide binding]; other site 458817006337 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 458817006338 tetratricopeptide repeat protein; Provisional; Region: PRK11788 458817006339 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 458817006340 binding surface 458817006341 TPR motif; other site 458817006342 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 458817006343 active site 458817006344 dimer interface [polypeptide binding]; other site 458817006345 short chain dehydrogenase; Provisional; Region: PRK07576 458817006346 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 458817006347 NAD(P) binding site [chemical binding]; other site 458817006348 substrate binding site [chemical binding]; other site 458817006349 homotetramer interface [polypeptide binding]; other site 458817006350 active site 458817006351 homodimer interface [polypeptide binding]; other site 458817006352 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 458817006353 Protein of unknown function, DUF486; Region: DUF486; pfam04342 458817006354 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 458817006355 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 458817006356 Cl binding site [ion binding]; other site 458817006357 oligomer interface [polypeptide binding]; other site 458817006358 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 458817006359 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 458817006360 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006361 active site 458817006362 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 458817006363 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 458817006364 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 458817006365 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 458817006366 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 458817006367 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 458817006368 domain interface [polypeptide binding]; other site 458817006369 putative active site [active] 458817006370 catalytic site [active] 458817006371 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 458817006372 domain interface [polypeptide binding]; other site 458817006373 putative active site [active] 458817006374 catalytic site [active] 458817006375 Uncharacterized conserved protein [Function unknown]; Region: COG3148 458817006376 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 458817006377 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817006378 active site 458817006379 phosphorylation site [posttranslational modification] 458817006380 intermolecular recognition site; other site 458817006381 dimerization interface [polypeptide binding]; other site 458817006382 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 458817006383 DNA binding residues [nucleotide binding] 458817006384 dimerization interface [polypeptide binding]; other site 458817006385 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 458817006386 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 458817006387 dimer interface [polypeptide binding]; other site 458817006388 phosphorylation site [posttranslational modification] 458817006389 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817006390 ATP binding site [chemical binding]; other site 458817006391 Mg2+ binding site [ion binding]; other site 458817006392 G-X-G motif; other site 458817006393 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 458817006394 ApbE family; Region: ApbE; pfam02424 458817006395 FMN-binding domain; Region: FMN_bind; pfam04205 458817006396 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 458817006397 eyelet of channel; other site 458817006398 trimer interface [polypeptide binding]; other site 458817006399 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 458817006400 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 458817006401 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 458817006402 active site 458817006403 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 458817006404 active site 458817006405 DNA binding site [nucleotide binding] 458817006406 Int/Topo IB signature motif; other site 458817006407 Ecdysteroid kinase; Region: EcKinase; cl17738 458817006408 C factor cell-cell signaling protein; Provisional; Region: PRK09009 458817006409 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 458817006410 NADP binding site [chemical binding]; other site 458817006411 homodimer interface [polypeptide binding]; other site 458817006412 active site 458817006413 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 458817006414 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 458817006415 ATP-grasp domain; Region: ATP-grasp_4; cl17255 458817006416 putative cross-wall-targeting lipoprotein signal; Region: strep_RK_lipo; TIGR03726 458817006417 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 458817006418 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 458817006419 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 458817006420 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 458817006421 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 458817006422 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 458817006423 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 458817006424 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 458817006425 DsrC like protein; Region: DsrC; pfam04358 458817006426 DsrH like protein; Region: DsrH; pfam04077 458817006427 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 458817006428 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 458817006429 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 458817006430 YccA-like proteins; Region: YccA_like; cd10433 458817006431 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 458817006432 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817006433 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 458817006434 dimerization interface [polypeptide binding]; other site 458817006435 putative transporter; Provisional; Region: PRK11043 458817006436 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817006437 putative substrate translocation pore; other site 458817006438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006439 tropinone reductase; Provisional; Region: PRK09242 458817006440 NAD(P) binding site [chemical binding]; other site 458817006441 active site 458817006442 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817006443 putative substrate translocation pore; other site 458817006444 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817006445 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 458817006446 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 458817006447 active site 458817006448 catalytic residues [active] 458817006449 metal binding site [ion binding]; metal-binding site 458817006450 DmpG-like communication domain; Region: DmpG_comm; pfam07836 458817006451 acetaldehyde dehydrogenase; Validated; Region: PRK08300 458817006452 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 458817006453 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 458817006454 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 458817006455 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 458817006456 Transcriptional regulators [Transcription]; Region: MarR; COG1846 458817006457 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 458817006458 NAD(P) binding site [chemical binding]; other site 458817006459 catalytic residues [active] 458817006460 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 458817006461 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 458817006462 [2Fe-2S] cluster binding site [ion binding]; other site 458817006463 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817006464 putative substrate translocation pore; other site 458817006465 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 458817006466 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 458817006467 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 458817006468 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 458817006469 acyl-activating enzyme (AAE) consensus motif; other site 458817006470 acyl-activating enzyme (AAE) consensus motif; other site 458817006471 putative AMP binding site [chemical binding]; other site 458817006472 putative active site [active] 458817006473 putative CoA binding site [chemical binding]; other site 458817006474 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 458817006475 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 458817006476 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 458817006477 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 458817006478 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 458817006479 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 458817006480 acyl-activating enzyme (AAE) consensus motif; other site 458817006481 putative AMP binding site [chemical binding]; other site 458817006482 putative active site [active] 458817006483 putative CoA binding site [chemical binding]; other site 458817006484 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 458817006485 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 458817006486 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 458817006487 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817006488 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006489 active site 458817006490 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 458817006491 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 458817006492 FAD binding pocket [chemical binding]; other site 458817006493 FAD binding motif [chemical binding]; other site 458817006494 phosphate binding motif [ion binding]; other site 458817006495 beta-alpha-beta structure motif; other site 458817006496 NAD(p) ribose binding residues [chemical binding]; other site 458817006497 NAD binding pocket [chemical binding]; other site 458817006498 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 458817006499 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 458817006500 catalytic loop [active] 458817006501 iron binding site [ion binding]; other site 458817006502 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 458817006503 classical (c) SDRs; Region: SDR_c; cd05233 458817006504 NAD(P) binding site [chemical binding]; other site 458817006505 active site 458817006506 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 458817006507 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 458817006508 FMN binding site [chemical binding]; other site 458817006509 active site 458817006510 substrate binding site [chemical binding]; other site 458817006511 catalytic residue [active] 458817006512 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 458817006513 Ligand binding site [chemical binding]; other site 458817006514 Electron transfer flavoprotein domain; Region: ETF; pfam01012 458817006515 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 458817006516 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 458817006517 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 458817006518 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458817006519 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 458817006520 DNA binding residues [nucleotide binding] 458817006521 dimerization interface [polypeptide binding]; other site 458817006522 enoyl-CoA hydratase; Provisional; Region: PRK08138 458817006523 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 458817006524 substrate binding site [chemical binding]; other site 458817006525 oxyanion hole (OAH) forming residues; other site 458817006526 trimer interface [polypeptide binding]; other site 458817006527 short chain dehydrogenase; Provisional; Region: PRK07856 458817006528 classical (c) SDRs; Region: SDR_c; cd05233 458817006529 NAD(P) binding site [chemical binding]; other site 458817006530 active site 458817006531 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 458817006532 active site 458817006533 catalytic site [active] 458817006534 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 458817006535 DUF35 OB-fold domain; Region: DUF35; pfam01796 458817006536 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817006537 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 458817006538 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006539 active site 458817006540 SAV4209 is a Streptomyces avermitilis protein with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. The alpha- and...; Region: SAV4209; cd03455 458817006541 putative active site [active] 458817006542 putative catalytic site [active] 458817006543 lipid-transfer protein; Provisional; Region: PRK07855 458817006544 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 458817006545 active site 458817006546 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817006547 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006548 active site 458817006549 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 458817006550 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006551 active site 458817006552 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817006553 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 458817006554 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 458817006555 active site 458817006556 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 458817006557 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 458817006558 active site 458817006559 FMN binding site [chemical binding]; other site 458817006560 substrate binding site [chemical binding]; other site 458817006561 putative catalytic residue [active] 458817006562 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817006563 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817006564 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 458817006565 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 458817006566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006567 NAD(P) binding site [chemical binding]; other site 458817006568 active site 458817006569 SnoaL-like domain; Region: SnoaL_4; pfam13577 458817006570 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 458817006571 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 458817006572 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 458817006573 acyl-activating enzyme (AAE) consensus motif; other site 458817006574 putative AMP binding site [chemical binding]; other site 458817006575 putative active site [active] 458817006576 putative CoA binding site [chemical binding]; other site 458817006577 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 458817006578 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 458817006579 active site 458817006580 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 458817006581 DUF35 OB-fold domain; Region: DUF35; pfam01796 458817006582 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 458817006583 active site 2 [active] 458817006584 active site 1 [active] 458817006585 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 458817006586 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 458817006587 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 458817006588 active site 458817006589 Fe binding site [ion binding]; other site 458817006590 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 458817006591 Coenzyme A transferase; Region: CoA_trans; cl17247 458817006592 enoyl-CoA hydratase; Provisional; Region: PRK08290 458817006593 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 458817006594 substrate binding site [chemical binding]; other site 458817006595 oxyanion hole (OAH) forming residues; other site 458817006596 trimer interface [polypeptide binding]; other site 458817006597 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 458817006598 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 458817006599 FMN binding site [chemical binding]; other site 458817006600 substrate binding site [chemical binding]; other site 458817006601 putative catalytic residue [active] 458817006602 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 458817006603 enoyl-CoA hydratase; Provisional; Region: PRK06495 458817006604 substrate binding site [chemical binding]; other site 458817006605 oxyanion hole (OAH) forming residues; other site 458817006606 trimer interface [polypeptide binding]; other site 458817006607 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 458817006608 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817006609 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 458817006610 FAD binding site [chemical binding]; other site 458817006611 substrate binding site [chemical binding]; other site 458817006612 catalytic base [active] 458817006613 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817006614 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 458817006615 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006616 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817006617 active site 458817006618 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 458817006619 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 458817006620 dimer interface [polypeptide binding]; other site 458817006621 active site 458817006622 short chain dehydrogenase; Provisional; Region: PRK07791 458817006623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006624 NAD(P) binding site [chemical binding]; other site 458817006625 active site 458817006626 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 458817006627 Amidase; Region: Amidase; pfam01425 458817006628 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 458817006629 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 458817006630 short chain dehydrogenase; Provisional; Region: PRK07831 458817006631 classical (c) SDRs; Region: SDR_c; cd05233 458817006632 NAD(P) binding site [chemical binding]; other site 458817006633 active site 458817006634 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 458817006635 putative active site [active] 458817006636 putative catalytic site [active] 458817006637 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 458817006638 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 458817006639 dimer interface [polypeptide binding]; other site 458817006640 active site 458817006641 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 458817006642 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 458817006643 substrate binding site [chemical binding]; other site 458817006644 oxyanion hole (OAH) forming residues; other site 458817006645 trimer interface [polypeptide binding]; other site 458817006646 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 458817006647 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 458817006648 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 458817006649 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 458817006650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817006651 short chain dehydrogenase; Validated; Region: PRK07069 458817006652 NAD(P) binding site [chemical binding]; other site 458817006653 active site 458817006654 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 458817006655 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817006656 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 458817006657 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 458817006658 active site 458817006659 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 458817006660 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817006661 active site 458817006662 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817006663 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817006664 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817006665 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817006666 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 458817006667 SEC-C motif; Region: SEC-C; pfam02810 458817006668 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 458817006669 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 458817006670 DHHA2 domain; Region: DHHA2; pfam02833 458817006671 AAA domain; Region: AAA_32; pfam13654 458817006672 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 458817006673 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 458817006674 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 458817006675 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 458817006676 molybdopterin cofactor binding site; other site 458817006677 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 458817006678 molybdopterin cofactor binding site; other site 458817006679 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 458817006680 Peptidase family U32; Region: Peptidase_U32; pfam01136 458817006681 Peptidase family U32; Region: Peptidase_U32; cl03113 458817006682 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 458817006683 active site residue [active] 458817006684 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 458817006685 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817006686 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 458817006687 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 458817006688 S-adenosylmethionine binding site [chemical binding]; other site 458817006689 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 458817006690 cytosine deaminase; Provisional; Region: PRK09230 458817006691 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 458817006692 active site 458817006693 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 458817006694 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 458817006695 Na binding site [ion binding]; other site 458817006696 putative substrate binding site [chemical binding]; other site 458817006697 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 458817006698 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 458817006699 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817006700 putative substrate translocation pore; other site 458817006701 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817006702 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 458817006703 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817006704 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817006705 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 458817006706 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817006707 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817006708 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 458817006709 Protein export membrane protein; Region: SecD_SecF; cl14618 458817006710 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 458817006711 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 458817006712 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 458817006713 active site 458817006714 DNA binding site [nucleotide binding] 458817006715 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 458817006716 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 458817006717 Catalytic site [active] 458817006718 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817006719 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817006720 metal binding site [ion binding]; metal-binding site 458817006721 active site 458817006722 I-site; other site 458817006723 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 458817006724 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 458817006725 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 458817006726 active site 458817006727 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 458817006728 ATP binding site [chemical binding]; other site 458817006729 putative Mg++ binding site [ion binding]; other site 458817006730 helicase superfamily c-terminal domain; Region: HELICc; smart00490 458817006731 Abortive infection C-terminus; Region: Abi_C; pfam14355 458817006732 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 458817006733 ATP binding site [chemical binding]; other site 458817006734 putative Mg++ binding site [ion binding]; other site 458817006735 nucleotide binding region [chemical binding]; other site 458817006736 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 458817006737 ATP-binding site [chemical binding]; other site 458817006738 DNA-specific endonuclease I; Provisional; Region: PRK15137 458817006739 Endonuclease I; Region: Endonuclease_1; pfam04231 458817006740 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 458817006741 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 458817006742 active site 458817006743 DNA binding site [nucleotide binding] 458817006744 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 458817006745 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 458817006746 Catalytic site [active] 458817006747 AAA domain; Region: AAA_13; pfam13166 458817006748 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817006749 ABC transporter signature motif; other site 458817006750 Walker B; other site 458817006751 D-loop; other site 458817006752 H-loop/switch region; other site 458817006753 FRG domain; Region: FRG; pfam08867 458817006754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 458817006755 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 458817006756 active site 458817006757 catalytic residues [active] 458817006758 DNA binding site [nucleotide binding] 458817006759 Int/Topo IB signature motif; other site 458817006760 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 458817006761 active site 458817006762 catalytic residues [active] 458817006763 DNA binding site [nucleotide binding] 458817006764 Int/Topo IB signature motif; other site 458817006765 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 458817006766 Int/Topo IB signature motif; other site 458817006767 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 458817006768 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 458817006769 Low-spin heme binding site [chemical binding]; other site 458817006770 Putative water exit pathway; other site 458817006771 Binuclear center (active site) [active] 458817006772 Putative proton exit pathway; other site 458817006773 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 458817006774 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 458817006775 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 458817006776 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 458817006777 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 458817006778 Cytochrome c; Region: Cytochrom_C; pfam00034 458817006779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 458817006780 FixH; Region: FixH; pfam05751 458817006781 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 458817006782 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 458817006783 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 458817006784 metal-binding site [ion binding] 458817006785 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458817006786 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 458817006787 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 458817006788 Family description; Region: DsbD_2; pfam13386 458817006789 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 458817006790 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 458817006791 ligand binding site [chemical binding]; other site 458817006792 flexible hinge region; other site 458817006793 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 458817006794 putative switch regulator; other site 458817006795 non-specific DNA interactions [nucleotide binding]; other site 458817006796 DNA binding site [nucleotide binding] 458817006797 sequence specific DNA binding site [nucleotide binding]; other site 458817006798 putative cAMP binding site [chemical binding]; other site 458817006799 universal stress protein UspE; Provisional; Region: PRK11175 458817006800 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 458817006801 Ligand Binding Site [chemical binding]; other site 458817006802 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 458817006803 Ligand Binding Site [chemical binding]; other site 458817006804 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 458817006805 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 458817006806 Ligand Binding Site [chemical binding]; other site 458817006807 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 458817006808 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 458817006809 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 458817006810 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 458817006811 phosphate binding site [ion binding]; other site 458817006812 putative substrate binding pocket [chemical binding]; other site 458817006813 dimer interface [polypeptide binding]; other site 458817006814 HPP family; Region: HPP; pfam04982 458817006815 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 458817006816 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 458817006817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817006818 homodimer interface [polypeptide binding]; other site 458817006819 catalytic residue [active] 458817006820 seryl-tRNA synthetase; Provisional; Region: PRK05431 458817006821 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 458817006822 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 458817006823 dimer interface [polypeptide binding]; other site 458817006824 active site 458817006825 motif 1; other site 458817006826 motif 2; other site 458817006827 motif 3; other site 458817006828 camphor resistance protein CrcB; Provisional; Region: PRK14197 458817006829 recombination factor protein RarA; Reviewed; Region: PRK13342 458817006830 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817006831 Walker A motif; other site 458817006832 ATP binding site [chemical binding]; other site 458817006833 Walker B motif; other site 458817006834 arginine finger; other site 458817006835 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 458817006836 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 458817006837 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 458817006838 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 458817006839 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 458817006840 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 458817006841 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 458817006842 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 458817006843 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 458817006844 putative DNA binding site [nucleotide binding]; other site 458817006845 putative Zn2+ binding site [ion binding]; other site 458817006846 AsnC family; Region: AsnC_trans_reg; pfam01037 458817006847 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 458817006848 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 458817006849 hexamer interface [polypeptide binding]; other site 458817006850 ligand binding site [chemical binding]; other site 458817006851 putative active site [active] 458817006852 NAD(P) binding site [chemical binding]; other site 458817006853 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817006854 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817006855 active site 458817006856 phosphorylation site [posttranslational modification] 458817006857 intermolecular recognition site; other site 458817006858 dimerization interface [polypeptide binding]; other site 458817006859 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 458817006860 DNA binding site [nucleotide binding] 458817006861 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 458817006862 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 458817006863 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 458817006864 ATP binding site [chemical binding]; other site 458817006865 putative Mg++ binding site [ion binding]; other site 458817006866 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 458817006867 nucleotide binding region [chemical binding]; other site 458817006868 ATP-binding site [chemical binding]; other site 458817006869 hypothetical protein; Provisional; Region: PRK05421 458817006870 putative catalytic site [active] 458817006871 putative phosphate binding site [ion binding]; other site 458817006872 putative metal binding site [ion binding]; other site 458817006873 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 458817006874 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 458817006875 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 458817006876 putative active site [active] 458817006877 catalytic site [active] 458817006878 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 458817006879 putative active site [active] 458817006880 catalytic site [active] 458817006881 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 458817006882 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 458817006883 active site 458817006884 metal binding site [ion binding]; metal-binding site 458817006885 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 458817006886 Lamin Tail Domain; Region: LTD; pfam00932 458817006887 Endonuclease I; Region: Endonuclease_1; pfam04231 458817006888 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 458817006889 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 458817006890 generic binding surface I; other site 458817006891 generic binding surface II; other site 458817006892 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 458817006893 putative catalytic site [active] 458817006894 putative metal binding site [ion binding]; other site 458817006895 putative phosphate binding site [ion binding]; other site 458817006896 Nitrate and nitrite sensing; Region: NIT; pfam08376 458817006897 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 458817006898 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 458817006899 dimerization interface [polypeptide binding]; other site 458817006900 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817006901 dimer interface [polypeptide binding]; other site 458817006902 putative CheW interface [polypeptide binding]; other site 458817006903 quinolinate synthetase; Provisional; Region: PRK09375 458817006904 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 458817006905 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 458817006906 E3 interaction surface; other site 458817006907 lipoyl attachment site [posttranslational modification]; other site 458817006908 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 458817006909 E3 interaction surface; other site 458817006910 lipoyl attachment site [posttranslational modification]; other site 458817006911 e3 binding domain; Region: E3_binding; pfam02817 458817006912 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 458817006913 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 458817006914 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 458817006915 alpha subunit interface [polypeptide binding]; other site 458817006916 TPP binding site [chemical binding]; other site 458817006917 heterodimer interface [polypeptide binding]; other site 458817006918 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458817006919 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 458817006920 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 458817006921 tetramer interface [polypeptide binding]; other site 458817006922 TPP-binding site [chemical binding]; other site 458817006923 heterodimer interface [polypeptide binding]; other site 458817006924 phosphorylation loop region [posttranslational modification] 458817006925 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 458817006926 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 458817006927 putative active site [active] 458817006928 Zn binding site [ion binding]; other site 458817006929 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 458817006930 phosphoglucomutase; Validated; Region: PRK07564 458817006931 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 458817006932 active site 458817006933 substrate binding site [chemical binding]; other site 458817006934 metal binding site [ion binding]; metal-binding site 458817006935 replication initiation regulator SeqA; Provisional; Region: PRK11187 458817006936 PGAP1-like protein; Region: PGAP1; pfam07819 458817006937 acyl-CoA esterase; Provisional; Region: PRK10673 458817006938 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 458817006939 LexA regulated protein; Provisional; Region: PRK11675 458817006940 flavodoxin FldA; Validated; Region: PRK09267 458817006941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 458817006942 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 458817006943 elongation factor P; Validated; Region: PRK00529 458817006944 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 458817006945 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 458817006946 RNA binding site [nucleotide binding]; other site 458817006947 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 458817006948 RNA binding site [nucleotide binding]; other site 458817006949 aminotransferase AlaT; Validated; Region: PRK09265 458817006950 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 458817006951 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817006952 homodimer interface [polypeptide binding]; other site 458817006953 catalytic residue [active] 458817006954 5'-nucleotidase; Provisional; Region: PRK03826 458817006955 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 458817006956 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817006957 Zn2+ binding site [ion binding]; other site 458817006958 Mg2+ binding site [ion binding]; other site 458817006959 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 458817006960 hypothetical protein; Provisional; Region: PRK11111 458817006961 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 458817006962 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 458817006963 putative catalytic cysteine [active] 458817006964 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 458817006965 putative active site [active] 458817006966 metal binding site [ion binding]; metal-binding site 458817006967 malate synthase G; Provisional; Region: PRK02999 458817006968 active site 458817006969 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817006970 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817006971 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 458817006972 substrate binding pocket [chemical binding]; other site 458817006973 dimerization interface [polypeptide binding]; other site 458817006974 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 458817006975 tetramer interface [polypeptide binding]; other site 458817006976 active site 458817006977 Mg2+/Mn2+ binding site [ion binding]; other site 458817006978 isocitrate lyase; Region: PLN02892 458817006979 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 458817006980 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817006981 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 458817006982 Fumarase C-terminus; Region: Fumerase_C; pfam05683 458817006983 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 458817006984 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 458817006985 chorismate binding enzyme; Region: Chorismate_bind; cl10555 458817006986 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 458817006987 putative active site [active] 458817006988 putative CoA binding site [chemical binding]; other site 458817006989 nudix motif; other site 458817006990 metal binding site [ion binding]; metal-binding site 458817006991 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 458817006992 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 458817006993 putative dimer interface [polypeptide binding]; other site 458817006994 putative anticodon binding site; other site 458817006995 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 458817006996 homodimer interface [polypeptide binding]; other site 458817006997 motif 1; other site 458817006998 motif 2; other site 458817006999 active site 458817007000 motif 3; other site 458817007001 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 458817007002 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 458817007003 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 458817007004 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 458817007005 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 458817007006 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 458817007007 putative substrate-binding site; other site 458817007008 nickel binding site [ion binding]; other site 458817007009 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 458817007010 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 458817007011 Acylphosphatase; Region: Acylphosphatase; pfam00708 458817007012 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 458817007013 HypF finger; Region: zf-HYPF; pfam07503 458817007014 HypF finger; Region: zf-HYPF; pfam07503 458817007015 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 458817007016 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 458817007017 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 458817007018 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 458817007019 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 458817007020 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 458817007021 dimerization interface [polypeptide binding]; other site 458817007022 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 458817007023 ATP binding site [chemical binding]; other site 458817007024 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 458817007025 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 458817007026 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 458817007027 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 458817007028 binding surface 458817007029 TPR motif; other site 458817007030 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 458817007031 binding surface 458817007032 TPR motif; other site 458817007033 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 458817007034 binding surface 458817007035 TPR motif; other site 458817007036 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 458817007037 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 458817007038 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 458817007039 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 458817007040 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 458817007041 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 458817007042 ATP binding site [chemical binding]; other site 458817007043 Walker A motif; other site 458817007044 hexamer interface [polypeptide binding]; other site 458817007045 Walker B motif; other site 458817007046 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 458817007047 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 458817007048 TadE-like protein; Region: TadE; pfam07811 458817007049 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 458817007050 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 458817007051 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 458817007052 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 458817007053 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 458817007054 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817007055 Walker A motif; other site 458817007056 ATP binding site [chemical binding]; other site 458817007057 Walker B motif; other site 458817007058 arginine finger; other site 458817007059 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 458817007060 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 458817007061 Homeodomain-like domain; Region: HTH_23; pfam13384 458817007062 Winged helix-turn helix; Region: HTH_29; pfam13551 458817007063 Homeodomain-like domain; Region: HTH_32; pfam13565 458817007064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 458817007065 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 458817007066 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 458817007067 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 458817007068 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 458817007069 Sulfatase; Region: Sulfatase; cl17466 458817007070 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 458817007071 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 458817007072 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 458817007073 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 458817007074 Ligand binding site; other site 458817007075 Putative Catalytic site; other site 458817007076 DXD motif; other site 458817007077 Methyltransferase domain; Region: Methyltransf_23; pfam13489 458817007078 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 458817007079 S-adenosylmethionine binding site [chemical binding]; other site 458817007080 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 458817007081 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 458817007082 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 458817007083 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 458817007084 putative active site [active] 458817007085 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 458817007086 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 458817007087 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 458817007088 S-adenosylmethionine binding site [chemical binding]; other site 458817007089 malate synthase; Provisional; Region: PRK08951 458817007090 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 458817007091 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 458817007092 non-specific DNA binding site [nucleotide binding]; other site 458817007093 salt bridge; other site 458817007094 sequence-specific DNA binding site [nucleotide binding]; other site 458817007095 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 458817007096 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 458817007097 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 458817007098 Uncharacterized conserved protein [Function unknown]; Region: COG2850 458817007099 A domain family that is part of the cupin metalloenzyme superfamily; Region: JmjC; smart00558 458817007100 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 458817007101 active site 458817007102 catalytic site [active] 458817007103 substrate binding site [chemical binding]; other site 458817007104 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 458817007105 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 458817007106 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 458817007107 dimerization interface [polypeptide binding]; other site 458817007108 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817007109 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817007110 dimer interface [polypeptide binding]; other site 458817007111 putative CheW interface [polypeptide binding]; other site 458817007112 Uncharacterized conserved protein [Function unknown]; Region: COG3603 458817007113 Family description; Region: ACT_7; pfam13840 458817007114 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 458817007115 dimerization domain swap beta strand [polypeptide binding]; other site 458817007116 regulatory protein interface [polypeptide binding]; other site 458817007117 active site 458817007118 regulatory phosphorylation site [posttranslational modification]; other site 458817007119 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 458817007120 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 458817007121 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 458817007122 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 458817007123 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 458817007124 HPr interaction site; other site 458817007125 glycerol kinase (GK) interaction site [polypeptide binding]; other site 458817007126 active site 458817007127 phosphorylation site [posttranslational modification] 458817007128 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 458817007129 ArsC family; Region: ArsC; pfam03960 458817007130 putative catalytic residues [active] 458817007131 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 458817007132 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 458817007133 metal binding site [ion binding]; metal-binding site 458817007134 dimer interface [polypeptide binding]; other site 458817007135 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 458817007136 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 458817007137 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 458817007138 active site clefts [active] 458817007139 zinc binding site [ion binding]; other site 458817007140 dimer interface [polypeptide binding]; other site 458817007141 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 458817007142 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 458817007143 inhibitor-cofactor binding pocket; inhibition site 458817007144 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817007145 catalytic residue [active] 458817007146 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 458817007147 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 458817007148 active site 458817007149 NAD binding site [chemical binding]; other site 458817007150 metal binding site [ion binding]; metal-binding site 458817007151 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 458817007152 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 458817007153 Ligand binding site; other site 458817007154 oligomer interface; other site 458817007155 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 458817007156 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817007157 Protein export membrane protein; Region: SecD_SecF; cl14618 458817007158 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817007159 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817007160 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 458817007161 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 458817007162 dihydrodipicolinate synthase; Region: dapA; TIGR00674 458817007163 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 458817007164 dimer interface [polypeptide binding]; other site 458817007165 active site 458817007166 catalytic residue [active] 458817007167 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 458817007168 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817007169 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817007170 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 458817007171 catalytic triad [active] 458817007172 Lysine efflux permease [General function prediction only]; Region: COG1279 458817007173 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 458817007174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817007175 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 458817007176 putative dimerization interface [polypeptide binding]; other site 458817007177 Domain of unknown function DUF20; Region: UPF0118; pfam01594 458817007178 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 458817007179 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 458817007180 CPxP motif; other site 458817007181 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 458817007182 Peptidase family M48; Region: Peptidase_M48; cl12018 458817007183 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 458817007184 binding surface 458817007185 TPR motif; other site 458817007186 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 458817007187 ArsC family; Region: ArsC; pfam03960 458817007188 catalytic residues [active] 458817007189 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 458817007190 DNA replication initiation factor; Provisional; Region: PRK08084 458817007191 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 458817007192 Walker A motif; other site 458817007193 ATP binding site [chemical binding]; other site 458817007194 Walker B motif; other site 458817007195 arginine finger; other site 458817007196 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 458817007197 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 458817007198 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 458817007199 putative GSH binding site [chemical binding]; other site 458817007200 catalytic residues [active] 458817007201 superoxide dismutase; Provisional; Region: PRK10543 458817007202 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 458817007203 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 458817007204 PrkA family serine protein kinase; Provisional; Region: PRK15455 458817007205 AAA ATPase domain; Region: AAA_16; pfam13191 458817007206 Walker A motif; other site 458817007207 ATP binding site [chemical binding]; other site 458817007208 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 458817007209 hypothetical protein; Provisional; Region: PRK05325 458817007210 SpoVR family protein; Provisional; Region: PRK11767 458817007211 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 458817007212 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 458817007213 5S rRNA interface [nucleotide binding]; other site 458817007214 CTC domain interface [polypeptide binding]; other site 458817007215 L16 interface [polypeptide binding]; other site 458817007216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 458817007217 Peptidase M15; Region: Peptidase_M15_3; cl01194 458817007218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 458817007219 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 458817007220 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 458817007221 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 458817007222 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 458817007223 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 458817007224 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 458817007225 GIY-YIG motif/motif A; other site 458817007226 active site 458817007227 catalytic site [active] 458817007228 putative DNA binding site [nucleotide binding]; other site 458817007229 metal binding site [ion binding]; metal-binding site 458817007230 UvrB/uvrC motif; Region: UVR; pfam02151 458817007231 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 458817007232 response regulator; Provisional; Region: PRK09483 458817007233 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007234 active site 458817007235 phosphorylation site [posttranslational modification] 458817007236 intermolecular recognition site; other site 458817007237 dimerization interface [polypeptide binding]; other site 458817007238 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 458817007239 DNA binding residues [nucleotide binding] 458817007240 dimerization interface [polypeptide binding]; other site 458817007241 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 458817007242 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 458817007243 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 458817007244 active site 1 [active] 458817007245 dimer interface [polypeptide binding]; other site 458817007246 active site 2 [active] 458817007247 ribosome modulation factor; Provisional; Region: PRK14563 458817007248 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 458817007249 ABC transporter ATPase component; Reviewed; Region: PRK11147 458817007250 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817007251 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817007252 ABC transporter; Region: ABC_tran_2; pfam12848 458817007253 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817007254 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 458817007255 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 458817007256 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 458817007257 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 458817007258 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 458817007259 S-adenosylmethionine binding site [chemical binding]; other site 458817007260 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 458817007261 active site 458817007262 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 458817007263 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 458817007264 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 458817007265 quinone interaction residues [chemical binding]; other site 458817007266 active site 458817007267 catalytic residues [active] 458817007268 FMN binding site [chemical binding]; other site 458817007269 substrate binding site [chemical binding]; other site 458817007270 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 458817007271 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 458817007272 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 458817007273 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 458817007274 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 458817007275 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 458817007276 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 458817007277 aminopeptidase N; Provisional; Region: pepN; PRK14015 458817007278 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 458817007279 active site 458817007280 Zn binding site [ion binding]; other site 458817007281 carboxy-terminal protease; Provisional; Region: PRK11186 458817007282 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 458817007283 protein binding site [polypeptide binding]; other site 458817007284 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 458817007285 Catalytic dyad [active] 458817007286 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 458817007287 ProP expression regulator; Provisional; Region: PRK04950 458817007288 ProQ/FINO family; Region: ProQ; smart00945 458817007289 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 458817007290 GAF domain; Region: GAF_2; pfam13185 458817007291 YebG protein; Region: YebG; pfam07130 458817007292 Paraquat-inducible protein A; Region: PqiA; pfam04403 458817007293 Paraquat-inducible protein A; Region: PqiA; pfam04403 458817007294 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 458817007295 mce related protein; Region: MCE; pfam02470 458817007296 mce related protein; Region: MCE; pfam02470 458817007297 mce related protein; Region: MCE; pfam02470 458817007298 mce related protein; Region: MCE; pfam02470 458817007299 mce related protein; Region: MCE; pfam02470 458817007300 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 458817007301 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 458817007302 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 458817007303 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 458817007304 S-adenosylmethionine binding site [chemical binding]; other site 458817007305 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 458817007306 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 458817007307 active site 458817007308 PilZ domain; Region: PilZ; cl01260 458817007309 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 458817007310 DNA polymerase III subunit delta'; Validated; Region: PRK08485 458817007311 thymidylate kinase; Validated; Region: tmk; PRK00698 458817007312 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 458817007313 TMP-binding site; other site 458817007314 ATP-binding site [chemical binding]; other site 458817007315 YceG-like family; Region: YceG; pfam02618 458817007316 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 458817007317 dimerization interface [polypeptide binding]; other site 458817007318 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 458817007319 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 458817007320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817007321 catalytic residue [active] 458817007322 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 458817007323 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 458817007324 ATP-binding site [chemical binding]; other site 458817007325 Sugar specificity; other site 458817007326 Pyrimidine base specificity; other site 458817007327 antiporter inner membrane protein; Provisional; Region: PRK11670 458817007328 Domain of unknown function DUF59; Region: DUF59; cl00941 458817007329 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 458817007330 Walker A motif; other site 458817007331 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 458817007332 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 458817007333 active site 458817007334 HIGH motif; other site 458817007335 KMSKS motif; other site 458817007336 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 458817007337 tRNA binding surface [nucleotide binding]; other site 458817007338 anticodon binding site; other site 458817007339 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 458817007340 dimer interface [polypeptide binding]; other site 458817007341 putative tRNA-binding site [nucleotide binding]; other site 458817007342 Uncharacterized conserved protein [Function unknown]; Region: COG0327 458817007343 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 458817007344 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817007345 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 458817007346 putative substrate translocation pore; other site 458817007347 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 458817007348 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 458817007349 PYR/PP interface [polypeptide binding]; other site 458817007350 dimer interface [polypeptide binding]; other site 458817007351 TPP binding site [chemical binding]; other site 458817007352 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 458817007353 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 458817007354 TPP-binding site [chemical binding]; other site 458817007355 dimer interface [polypeptide binding]; other site 458817007356 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 458817007357 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 458817007358 putative valine binding site [chemical binding]; other site 458817007359 dimer interface [polypeptide binding]; other site 458817007360 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 458817007361 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 458817007362 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 458817007363 putative dimer interface [polypeptide binding]; other site 458817007364 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 458817007365 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 458817007366 active site 458817007367 metal binding site [ion binding]; metal-binding site 458817007368 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 458817007369 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 458817007370 putative hydrolase; Provisional; Region: PRK11460 458817007371 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 458817007372 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 458817007373 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 458817007374 putative dimer interface [polypeptide binding]; other site 458817007375 N-terminal domain interface [polypeptide binding]; other site 458817007376 putative substrate binding pocket (H-site) [chemical binding]; other site 458817007377 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 458817007378 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 458817007379 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 458817007380 Transglycosylase SLT domain; Region: SLT_2; pfam13406 458817007381 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 458817007382 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 458817007383 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817007384 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 458817007385 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 458817007386 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 458817007387 FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1; Region: FYVE; cl17764 458817007388 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 458817007389 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 458817007390 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007391 active site 458817007392 phosphorylation site [posttranslational modification] 458817007393 intermolecular recognition site; other site 458817007394 dimerization interface [polypeptide binding]; other site 458817007395 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 458817007396 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817007397 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 458817007398 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 458817007399 catalytic residue [active] 458817007400 hypothetical protein; Provisional; Region: PRK11770 458817007401 Domain of unknown function (DUF307); Region: DUF307; pfam03733 458817007402 Domain of unknown function (DUF307); Region: DUF307; pfam03733 458817007403 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 458817007404 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817007405 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 458817007406 membrane-bound complex binding site; other site 458817007407 hinge residues; other site 458817007408 Putative transmembrane protein (PGPGW); Region: PGPGW; pfam09656 458817007409 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 458817007410 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817007411 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817007412 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 458817007413 dimerization interface [polypeptide binding]; other site 458817007414 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 458817007415 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 458817007416 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 458817007417 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 458817007418 dimer interface [polypeptide binding]; other site 458817007419 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 458817007420 active site 458817007421 Fe binding site [ion binding]; other site 458817007422 PAS fold; Region: PAS_4; pfam08448 458817007423 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 458817007424 putative active site [active] 458817007425 heme pocket [chemical binding]; other site 458817007426 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817007427 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817007428 metal binding site [ion binding]; metal-binding site 458817007429 active site 458817007430 I-site; other site 458817007431 Putative transposase; Region: Y2_Tnp; pfam04986 458817007432 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 458817007433 active site 458817007434 Putative phosphatase (DUF442); Region: DUF442; cl17385 458817007435 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 458817007436 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 458817007437 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 458817007438 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 458817007439 active site 458817007440 tetramer interface [polypeptide binding]; other site 458817007441 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 458817007442 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817007443 putative substrate translocation pore; other site 458817007444 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458817007445 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 458817007446 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 458817007447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817007448 Walker A/P-loop; other site 458817007449 ATP binding site [chemical binding]; other site 458817007450 Q-loop/lid; other site 458817007451 ABC transporter signature motif; other site 458817007452 Walker B; other site 458817007453 D-loop; other site 458817007454 H-loop/switch region; other site 458817007455 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 458817007456 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 458817007457 TM-ABC transporter signature motif; other site 458817007458 alpha-galactosidase; Provisional; Region: PRK15076 458817007459 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 458817007460 NAD binding site [chemical binding]; other site 458817007461 sugar binding site [chemical binding]; other site 458817007462 divalent metal binding site [ion binding]; other site 458817007463 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 458817007464 dimer interface [polypeptide binding]; other site 458817007465 PAS domain; Region: PAS_9; pfam13426 458817007466 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 458817007467 putative active site [active] 458817007468 heme pocket [chemical binding]; other site 458817007469 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 458817007470 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817007471 dimer interface [polypeptide binding]; other site 458817007472 putative CheW interface [polypeptide binding]; other site 458817007473 hypothetical protein; Provisional; Region: PRK06156 458817007474 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 458817007475 active site 458817007476 metal binding site [ion binding]; metal-binding site 458817007477 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 458817007478 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 458817007479 active site 458817007480 Zn binding site [ion binding]; other site 458817007481 Protein of unknown function (DUF938); Region: DUF938; pfam06080 458817007482 dUMP phosphatase; Provisional; Region: PRK09449 458817007483 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 458817007484 motif II; other site 458817007485 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 458817007486 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 458817007487 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817007488 active site 458817007489 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 458817007490 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 458817007491 active site 458817007492 phosphate binding residues; other site 458817007493 catalytic residues [active] 458817007494 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 458817007495 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 458817007496 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 458817007497 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 458817007498 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 458817007499 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 458817007500 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 458817007501 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 458817007502 Ion channel; Region: Ion_trans_2; pfam07885 458817007503 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817007504 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 458817007505 FtsX-like permease family; Region: FtsX; pfam02687 458817007506 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817007507 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817007508 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817007509 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817007510 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817007511 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817007512 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458817007513 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 458817007514 Walker A/P-loop; other site 458817007515 ATP binding site [chemical binding]; other site 458817007516 Q-loop/lid; other site 458817007517 ABC transporter signature motif; other site 458817007518 Walker B; other site 458817007519 D-loop; other site 458817007520 H-loop/switch region; other site 458817007521 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 458817007522 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 458817007523 putative FMN binding site [chemical binding]; other site 458817007524 DoxX; Region: DoxX; pfam07681 458817007525 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 458817007526 active site 458817007527 ATP binding site [chemical binding]; other site 458817007528 Phosphotransferase enzyme family; Region: APH; pfam01636 458817007529 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 458817007530 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 458817007531 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 458817007532 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 458817007533 N-terminal plug; other site 458817007534 ligand-binding site [chemical binding]; other site 458817007535 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 458817007536 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 458817007537 putative dimer interface [polypeptide binding]; other site 458817007538 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 458817007539 CoenzymeA binding site [chemical binding]; other site 458817007540 subunit interaction site [polypeptide binding]; other site 458817007541 PHB binding site; other site 458817007542 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 458817007543 CoenzymeA binding site [chemical binding]; other site 458817007544 subunit interaction site [polypeptide binding]; other site 458817007545 PHB binding site; other site 458817007546 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 458817007547 nucleotide binding site/active site [active] 458817007548 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817007549 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817007550 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 458817007551 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 458817007552 DNA binding residues [nucleotide binding] 458817007553 dimerization interface [polypeptide binding]; other site 458817007554 heat shock protein HtpX; Provisional; Region: PRK05457 458817007555 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 458817007556 AAA domain; Region: AAA_26; pfam13500 458817007557 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 458817007558 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 458817007559 S-adenosylmethionine binding site [chemical binding]; other site 458817007560 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 458817007561 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 458817007562 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817007563 catalytic residue [active] 458817007564 biotin synthase; Provisional; Region: PRK15108 458817007565 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 458817007566 FeS/SAM binding site; other site 458817007567 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 458817007568 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 458817007569 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 458817007570 inhibitor-cofactor binding pocket; inhibition site 458817007571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817007572 catalytic residue [active] 458817007573 elongation factor G; Reviewed; Region: PRK00007 458817007574 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 458817007575 G1 box; other site 458817007576 putative GEF interaction site [polypeptide binding]; other site 458817007577 GTP/Mg2+ binding site [chemical binding]; other site 458817007578 Switch I region; other site 458817007579 G2 box; other site 458817007580 G3 box; other site 458817007581 Switch II region; other site 458817007582 G4 box; other site 458817007583 G5 box; other site 458817007584 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 458817007585 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 458817007586 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 458817007587 AAA domain; Region: AAA_33; pfam13671 458817007588 NAD-dependent deacetylase; Provisional; Region: PRK00481 458817007589 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 458817007590 NAD+ binding site [chemical binding]; other site 458817007591 substrate binding site [chemical binding]; other site 458817007592 Zn binding site [ion binding]; other site 458817007593 ferric uptake regulator; Provisional; Region: fur; PRK09462 458817007594 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 458817007595 metal binding site 2 [ion binding]; metal-binding site 458817007596 putative DNA binding helix; other site 458817007597 metal binding site 1 [ion binding]; metal-binding site 458817007598 dimer interface [polypeptide binding]; other site 458817007599 structural Zn2+ binding site [ion binding]; other site 458817007600 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 458817007601 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 458817007602 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 458817007603 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 458817007604 active site 458817007605 FMN binding site [chemical binding]; other site 458817007606 substrate binding site [chemical binding]; other site 458817007607 3Fe-4S cluster binding site [ion binding]; other site 458817007608 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 458817007609 CoA binding domain; Region: CoA_binding; pfam02629 458817007610 CoA-ligase; Region: Ligase_CoA; pfam00549 458817007611 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 458817007612 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 458817007613 CoA-ligase; Region: Ligase_CoA; pfam00549 458817007614 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 458817007615 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 458817007616 E3 interaction surface; other site 458817007617 lipoyl attachment site [posttranslational modification]; other site 458817007618 e3 binding domain; Region: E3_binding; pfam02817 458817007619 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 458817007620 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 458817007621 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 458817007622 TPP-binding site [chemical binding]; other site 458817007623 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 458817007624 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 458817007625 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 458817007626 catalytic loop [active] 458817007627 iron binding site [ion binding]; other site 458817007628 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 458817007629 L-aspartate oxidase; Provisional; Region: PRK06175 458817007630 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 458817007631 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 458817007632 SdhC subunit interface [polypeptide binding]; other site 458817007633 proximal heme binding site [chemical binding]; other site 458817007634 cardiolipin binding site; other site 458817007635 Iron-sulfur protein interface; other site 458817007636 proximal quinone binding site [chemical binding]; other site 458817007637 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 458817007638 Iron-sulfur protein interface; other site 458817007639 proximal quinone binding site [chemical binding]; other site 458817007640 SdhD (CybS) interface [polypeptide binding]; other site 458817007641 proximal heme binding site [chemical binding]; other site 458817007642 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 458817007643 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 458817007644 dimer interface [polypeptide binding]; other site 458817007645 active site 458817007646 citrylCoA binding site [chemical binding]; other site 458817007647 NADH binding [chemical binding]; other site 458817007648 cationic pore residues; other site 458817007649 oxalacetate/citrate binding site [chemical binding]; other site 458817007650 coenzyme A binding site [chemical binding]; other site 458817007651 catalytic triad [active] 458817007652 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817007653 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817007654 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817007655 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 458817007656 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817007657 Protein export membrane protein; Region: SecD_SecF; cl14618 458817007658 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817007659 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 458817007660 Walker A motif; other site 458817007661 ATP binding site [chemical binding]; other site 458817007662 Walker B motif; other site 458817007663 arginine finger; other site 458817007664 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817007665 Thioredoxin; Region: Thioredoxin_4; pfam13462 458817007666 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 458817007667 Gametolysin peptidase M11; Region: Peptidase_M11; pfam05548 458817007668 Uncharacterized conserved protein [Function unknown]; Region: COG2835 458817007669 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 458817007670 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 458817007671 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 458817007672 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458817007673 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 458817007674 Walker A/P-loop; other site 458817007675 ATP binding site [chemical binding]; other site 458817007676 Q-loop/lid; other site 458817007677 ABC transporter signature motif; other site 458817007678 Walker B; other site 458817007679 D-loop; other site 458817007680 H-loop/switch region; other site 458817007681 ComEC family competence protein; Provisional; Region: PRK11539 458817007682 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 458817007683 Competence protein; Region: Competence; pfam03772 458817007684 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 458817007685 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 458817007686 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 458817007687 Peptidase family M23; Region: Peptidase_M23; pfam01551 458817007688 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 458817007689 Nucleoid-associated protein [General function prediction only]; Region: COG3081 458817007690 nucleoid-associated protein NdpA; Validated; Region: PRK00378 458817007691 hypothetical protein; Provisional; Region: PRK13689 458817007692 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 458817007693 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 458817007694 Sulfatase; Region: Sulfatase; cl17466 458817007695 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817007696 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817007697 metal binding site [ion binding]; metal-binding site 458817007698 active site 458817007699 I-site; other site 458817007700 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 458817007701 NAD synthetase; Reviewed; Region: nadE; PRK00768 458817007702 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 458817007703 LysE type translocator; Region: LysE; cl00565 458817007704 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817007705 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007706 active site 458817007707 phosphorylation site [posttranslational modification] 458817007708 intermolecular recognition site; other site 458817007709 dimerization interface [polypeptide binding]; other site 458817007710 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817007711 Walker A motif; other site 458817007712 ATP binding site [chemical binding]; other site 458817007713 Walker B motif; other site 458817007714 arginine finger; other site 458817007715 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817007716 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817007717 HAMP domain; Region: HAMP; pfam00672 458817007718 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817007719 ATP binding site [chemical binding]; other site 458817007720 Mg2+ binding site [ion binding]; other site 458817007721 G-X-G motif; other site 458817007722 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 458817007723 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 458817007724 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 458817007725 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 458817007726 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 458817007727 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 458817007728 Transposase; Region: DDE_Tnp_ISL3; pfam01610 458817007729 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 458817007730 B12 binding site [chemical binding]; other site 458817007731 Radical SAM superfamily; Region: Radical_SAM; pfam04055 458817007732 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 458817007733 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 458817007734 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 458817007735 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817007736 Walker A/P-loop; other site 458817007737 ATP binding site [chemical binding]; other site 458817007738 ABC transporter signature motif; other site 458817007739 Walker B; other site 458817007740 D-loop; other site 458817007741 H-loop/switch region; other site 458817007742 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 458817007743 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 458817007744 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007745 active site 458817007746 phosphorylation site [posttranslational modification] 458817007747 intermolecular recognition site; other site 458817007748 dimerization interface [polypeptide binding]; other site 458817007749 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 458817007750 DNA binding site [nucleotide binding] 458817007751 sensor protein PhoQ; Provisional; Region: PRK10815 458817007752 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817007753 ATP binding site [chemical binding]; other site 458817007754 Mg2+ binding site [ion binding]; other site 458817007755 G-X-G motif; other site 458817007756 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 458817007757 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 458817007758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817007759 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 458817007760 putative substrate binding pocket [chemical binding]; other site 458817007761 putative dimerization interface [polypeptide binding]; other site 458817007762 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 458817007763 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 458817007764 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 458817007765 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 458817007766 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817007767 Zn2+ binding site [ion binding]; other site 458817007768 Mg2+ binding site [ion binding]; other site 458817007769 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 458817007770 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 458817007771 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 458817007772 Cl binding site [ion binding]; other site 458817007773 oligomer interface [polypeptide binding]; other site 458817007774 Mannosyltransferase (PIG-M); Region: Mannosyl_trans; cl08428 458817007775 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 458817007776 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 458817007777 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817007778 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 458817007779 putative dimerization interface [polypeptide binding]; other site 458817007780 putative substrate binding pocket [chemical binding]; other site 458817007781 purine nucleoside phosphorylase; Provisional; Region: PRK08202 458817007782 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458817007783 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458817007784 Nucleoside recognition; Region: Gate; pfam07670 458817007785 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458817007786 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 458817007787 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 458817007788 active site 458817007789 motif I; other site 458817007790 motif II; other site 458817007791 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 458817007792 proline aminopeptidase P II; Provisional; Region: PRK10879 458817007793 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 458817007794 active site 458817007795 amino acid transporter; Region: 2A0306; TIGR00909 458817007796 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 458817007797 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 458817007798 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 458817007799 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 458817007800 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 458817007801 hydroxyglutarate oxidase; Provisional; Region: PRK11728 458817007802 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 458817007803 Proline racemase; Region: Pro_racemase; pfam05544 458817007804 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 458817007805 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 458817007806 inhibitor site; inhibition site 458817007807 active site 458817007808 dimer interface [polypeptide binding]; other site 458817007809 catalytic residue [active] 458817007810 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 458817007811 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 458817007812 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 458817007813 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 458817007814 dimer interface [polypeptide binding]; other site 458817007815 NADP binding site [chemical binding]; other site 458817007816 catalytic residues [active] 458817007817 Transcriptional regulators [Transcription]; Region: GntR; COG1802 458817007818 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817007819 DNA-binding site [nucleotide binding]; DNA binding site 458817007820 FCD domain; Region: FCD; pfam07729 458817007821 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 458817007822 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 458817007823 dimer interface [polypeptide binding]; other site 458817007824 active site 458817007825 CoA binding pocket [chemical binding]; other site 458817007826 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 458817007827 Heme NO binding; Region: HNOB; pfam07700 458817007828 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 458817007829 dimer interface [polypeptide binding]; other site 458817007830 phosphorylation site [posttranslational modification] 458817007831 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817007832 ATP binding site [chemical binding]; other site 458817007833 Mg2+ binding site [ion binding]; other site 458817007834 G-X-G motif; other site 458817007835 Response regulator receiver domain; Region: Response_reg; pfam00072 458817007836 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007837 active site 458817007838 phosphorylation site [posttranslational modification] 458817007839 intermolecular recognition site; other site 458817007840 dimerization interface [polypeptide binding]; other site 458817007841 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 458817007842 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 458817007843 active site 458817007844 catalytic site [active] 458817007845 substrate binding site [chemical binding]; other site 458817007846 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 458817007847 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 458817007848 ligand binding site [chemical binding]; other site 458817007849 flexible hinge region; other site 458817007850 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 458817007851 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 458817007852 metal binding triad; other site 458817007853 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 458817007854 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 458817007855 Na binding site [ion binding]; other site 458817007856 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 458817007857 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 458817007858 active site 458817007859 Predicted permeases [General function prediction only]; Region: RarD; COG2962 458817007860 EamA-like transporter family; Region: EamA; pfam00892 458817007861 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 458817007862 substrate binding site [chemical binding]; other site 458817007863 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 458817007864 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 458817007865 catalytic residues [active] 458817007866 hinge region; other site 458817007867 alpha helical domain; other site 458817007868 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 458817007869 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 458817007870 putative NAD(P) binding site [chemical binding]; other site 458817007871 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 458817007872 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817007873 Zn2+ binding site [ion binding]; other site 458817007874 Mg2+ binding site [ion binding]; other site 458817007875 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 458817007876 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 458817007877 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 458817007878 nucleotide binding pocket [chemical binding]; other site 458817007879 K-X-D-G motif; other site 458817007880 catalytic site [active] 458817007881 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 458817007882 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 458817007883 Dimer interface [polypeptide binding]; other site 458817007884 BRCT sequence motif; other site 458817007885 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 458817007886 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 458817007887 FtsZ protein binding site [polypeptide binding]; other site 458817007888 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 458817007889 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 458817007890 Walker A/P-loop; other site 458817007891 ATP binding site [chemical binding]; other site 458817007892 Q-loop/lid; other site 458817007893 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 458817007894 ABC transporter signature motif; other site 458817007895 Walker B; other site 458817007896 D-loop; other site 458817007897 H-loop/switch region; other site 458817007898 putative sulfate transport protein CysZ; Validated; Region: PRK04949 458817007899 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 458817007900 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007901 active site 458817007902 phosphorylation site [posttranslational modification] 458817007903 intermolecular recognition site; other site 458817007904 dimerization interface [polypeptide binding]; other site 458817007905 Response regulator receiver domain; Region: Response_reg; pfam00072 458817007906 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817007907 active site 458817007908 phosphorylation site [posttranslational modification] 458817007909 intermolecular recognition site; other site 458817007910 dimerization interface [polypeptide binding]; other site 458817007911 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817007912 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817007913 metal binding site [ion binding]; metal-binding site 458817007914 active site 458817007915 I-site; other site 458817007916 RDD family; Region: RDD; pfam06271 458817007917 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 458817007918 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 458817007919 dimer interface [polypeptide binding]; other site 458817007920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817007921 catalytic residue [active] 458817007922 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817007923 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 458817007924 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 458817007925 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 458817007926 gating phenylalanine in ion channel; other site 458817007927 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 458817007928 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 458817007929 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 458817007930 hypothetical protein; Provisional; Region: PRK11588 458817007931 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 458817007932 sodium/panthothenate symporter; Provisional; Region: panF; PRK09442 458817007933 putative transporter; Provisional; Region: PRK10484 458817007934 Na binding site [ion binding]; other site 458817007935 Protein of unknown function (DUF997); Region: DUF997; cl01614 458817007936 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 458817007937 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817007938 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 458817007939 putative dimerization interface [polypeptide binding]; other site 458817007940 formate transporter FocA; Region: formate_focA; TIGR04060 458817007941 FOG: CBS domain [General function prediction only]; Region: COG0517 458817007942 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 458817007943 FOG: CBS domain [General function prediction only]; Region: COG0517 458817007944 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 458817007945 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 458817007946 Pyruvate formate lyase 1; Region: PFL1; cd01678 458817007947 coenzyme A binding site [chemical binding]; other site 458817007948 active site 458817007949 catalytic residues [active] 458817007950 glycine loop; other site 458817007951 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 458817007952 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 458817007953 FeS/SAM binding site; other site 458817007954 Protein of unknown function, DUF412; Region: DUF412; pfam04217 458817007955 propionate/acetate kinase; Provisional; Region: PRK12379 458817007956 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 458817007957 phosphate acetyltransferase; Reviewed; Region: PRK05632 458817007958 DRTGG domain; Region: DRTGG; pfam07085 458817007959 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 458817007960 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 458817007961 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 458817007962 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 458817007963 S-adenosylmethionine binding site [chemical binding]; other site 458817007964 Domain of unknown function DUF20; Region: UPF0118; pfam01594 458817007965 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 458817007966 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 458817007967 active site 458817007968 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 458817007969 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 458817007970 putative NAD(P) binding site [chemical binding]; other site 458817007971 putative active site [active] 458817007972 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 458817007973 FtsX-like permease family; Region: FtsX; pfam02687 458817007974 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 458817007975 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 458817007976 Walker A/P-loop; other site 458817007977 ATP binding site [chemical binding]; other site 458817007978 Q-loop/lid; other site 458817007979 ABC transporter signature motif; other site 458817007980 Walker B; other site 458817007981 D-loop; other site 458817007982 H-loop/switch region; other site 458817007983 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 458817007984 active site 458817007985 catalytic triad [active] 458817007986 oxyanion hole [active] 458817007987 switch loop; other site 458817007988 Protein of unknown function, DUF481; Region: DUF481; pfam04338 458817007989 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 458817007990 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 458817007991 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 458817007992 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 458817007993 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 458817007994 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 458817007995 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817007996 Methyltransferase domain; Region: Methyltransf_23; pfam13489 458817007997 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 458817007998 S-adenosylmethionine binding site [chemical binding]; other site 458817007999 Helix-turn-helix domain; Region: HTH_28; pfam13518 458817008000 Winged helix-turn helix; Region: HTH_29; pfam13551 458817008001 Homeodomain-like domain; Region: HTH_32; pfam13565 458817008002 Integrase core domain; Region: rve; pfam00665 458817008003 Helix-turn-helix domain; Region: HTH_28; pfam13518 458817008004 Winged helix-turn helix; Region: HTH_29; pfam13551 458817008005 Homeodomain-like domain; Region: HTH_32; pfam13565 458817008006 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 458817008007 putative inner membrane peptidase; Provisional; Region: PRK11778 458817008008 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 458817008009 tandem repeat interface [polypeptide binding]; other site 458817008010 oligomer interface [polypeptide binding]; other site 458817008011 active site residues [active] 458817008012 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 458817008013 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 458817008014 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 458817008015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008016 NAD(P) binding site [chemical binding]; other site 458817008017 active site 458817008018 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 458817008019 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 458817008020 RNA binding surface [nucleotide binding]; other site 458817008021 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 458817008022 probable active site [active] 458817008023 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 458817008024 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 458817008025 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 458817008026 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 458817008027 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 458817008028 active site 458817008029 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 458817008030 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 458817008031 intracellular septation protein A; Reviewed; Region: PRK00259 458817008032 YciI-like protein; Reviewed; Region: PRK11370 458817008033 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 458817008034 putative catalytic site [active] 458817008035 putative phosphate binding site [ion binding]; other site 458817008036 active site 458817008037 metal binding site A [ion binding]; metal-binding site 458817008038 DNA binding site [nucleotide binding] 458817008039 putative AP binding site [nucleotide binding]; other site 458817008040 putative metal binding site B [ion binding]; other site 458817008041 HAMP domain; Region: HAMP; pfam00672 458817008042 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817008043 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817008044 dimer interface [polypeptide binding]; other site 458817008045 putative CheW interface [polypeptide binding]; other site 458817008046 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 458817008047 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 458817008048 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 458817008049 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 458817008050 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 458817008051 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 458817008052 dimer interface [polypeptide binding]; other site 458817008053 active site 458817008054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817008055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817008056 Cache domain; Region: Cache_1; pfam02743 458817008057 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 458817008058 dimerization interface [polypeptide binding]; other site 458817008059 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817008060 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817008061 dimer interface [polypeptide binding]; other site 458817008062 putative CheW interface [polypeptide binding]; other site 458817008063 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 458817008064 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817008065 DNA topoisomerase III; Provisional; Region: PRK07726 458817008066 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 458817008067 active site 458817008068 putative interdomain interaction site [polypeptide binding]; other site 458817008069 putative metal-binding site [ion binding]; other site 458817008070 putative nucleotide binding site [chemical binding]; other site 458817008071 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 458817008072 domain I; other site 458817008073 DNA binding groove [nucleotide binding] 458817008074 phosphate binding site [ion binding]; other site 458817008075 domain II; other site 458817008076 domain III; other site 458817008077 nucleotide binding site [chemical binding]; other site 458817008078 catalytic site [active] 458817008079 domain IV; other site 458817008080 amidophosphoribosyltransferase; Provisional; Region: PRK09246 458817008081 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 458817008082 active site 458817008083 tetramer interface [polypeptide binding]; other site 458817008084 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817008085 active site 458817008086 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 458817008087 Colicin V production protein; Region: Colicin_V; cl00567 458817008088 cell division protein DedD; Provisional; Region: PRK11633 458817008089 Sporulation related domain; Region: SPOR; pfam05036 458817008090 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 458817008091 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 458817008092 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 458817008093 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 458817008094 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 458817008095 dimerization interface 3.5A [polypeptide binding]; other site 458817008096 active site 458817008097 FimV N-terminal domain; Region: FimV_core; TIGR03505 458817008098 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 458817008099 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 458817008100 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 458817008101 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 458817008102 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 458817008103 ligand binding site [chemical binding]; other site 458817008104 NAD binding site [chemical binding]; other site 458817008105 catalytic site [active] 458817008106 homodimer interface [polypeptide binding]; other site 458817008107 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 458817008108 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 458817008109 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 458817008110 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 458817008111 dimer interface [polypeptide binding]; other site 458817008112 active site 458817008113 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458817008114 substrate binding site [chemical binding]; other site 458817008115 catalytic residue [active] 458817008116 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817008117 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817008118 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 458817008119 dimerization interface [polypeptide binding]; other site 458817008120 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_19; cd04678 458817008121 nudix motif; other site 458817008122 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817008123 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817008124 metal binding site [ion binding]; metal-binding site 458817008125 active site 458817008126 I-site; other site 458817008127 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 458817008128 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 458817008129 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817008130 ATP binding site [chemical binding]; other site 458817008131 Mg2+ binding site [ion binding]; other site 458817008132 G-X-G motif; other site 458817008133 Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 458817008134 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 458817008135 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 458817008136 dimer interface [polypeptide binding]; other site 458817008137 active site 458817008138 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 458817008139 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 458817008140 YfcL protein; Region: YfcL; pfam08891 458817008141 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 458817008142 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817008143 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 458817008144 putative substrate translocation pore; other site 458817008145 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 458817008146 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 458817008147 Tetramer interface [polypeptide binding]; other site 458817008148 active site 458817008149 FMN-binding site [chemical binding]; other site 458817008150 HemK family putative methylases; Region: hemK_fam; TIGR00536 458817008151 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 458817008152 S-adenosylmethionine binding site [chemical binding]; other site 458817008153 hypothetical protein; Provisional; Region: PRK04946 458817008154 Smr domain; Region: Smr; pfam01713 458817008155 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 458817008156 catalytic core [active] 458817008157 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 458817008158 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 458817008159 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817008160 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817008161 Two component regulator propeller; Region: Reg_prop; pfam07494 458817008162 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 458817008163 PAS fold; Region: PAS_3; pfam08447 458817008164 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 458817008165 PAS domain; Region: PAS_9; pfam13426 458817008166 putative active site [active] 458817008167 heme pocket [chemical binding]; other site 458817008168 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817008169 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817008170 metal binding site [ion binding]; metal-binding site 458817008171 active site 458817008172 I-site; other site 458817008173 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 458817008174 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 458817008175 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 458817008176 substrate binding site [chemical binding]; other site 458817008177 oxyanion hole (OAH) forming residues; other site 458817008178 trimer interface [polypeptide binding]; other site 458817008179 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 458817008180 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 458817008181 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 458817008182 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 458817008183 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 458817008184 dimer interface [polypeptide binding]; other site 458817008185 active site 458817008186 MoxR-like ATPases [General function prediction only]; Region: COG0714 458817008187 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817008188 Walker A motif; other site 458817008189 ATP binding site [chemical binding]; other site 458817008190 Walker B motif; other site 458817008191 arginine finger; other site 458817008192 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 458817008193 Protein of unknown function DUF58; Region: DUF58; pfam01882 458817008194 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 458817008195 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 458817008196 metal ion-dependent adhesion site (MIDAS); other site 458817008197 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 458817008198 metal ion-dependent adhesion site (MIDAS); other site 458817008199 Tetratricopeptide repeat; Region: TPR_16; pfam13432 458817008200 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 458817008201 TPR motif; other site 458817008202 binding surface 458817008203 Oxygen tolerance; Region: BatD; pfam13584 458817008204 RNA polymerase sigma factor; Provisional; Region: PRK12517 458817008205 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817008206 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 458817008207 DNA binding residues [nucleotide binding] 458817008208 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 458817008209 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 458817008210 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 458817008211 Na binding site [ion binding]; other site 458817008212 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 458817008213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 458817008214 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817008215 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817008216 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817008217 Protein export membrane protein; Region: SecD_SecF; cl14618 458817008218 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 458817008219 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 458817008220 active site residue [active] 458817008221 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 458817008222 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 458817008223 dimerization interface [polypeptide binding]; other site 458817008224 active site 458817008225 hypothetical protein; Provisional; Region: PRK11020 458817008226 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 458817008227 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 458817008228 FeS/SAM binding site; other site 458817008229 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 458817008230 ATP cone domain; Region: ATP-cone; pfam03477 458817008231 Class III ribonucleotide reductase; Region: RNR_III; cd01675 458817008232 effector binding site; other site 458817008233 active site 458817008234 Zn binding site [ion binding]; other site 458817008235 glycine loop; other site 458817008236 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 458817008237 active site 458817008238 nucleophile elbow; other site 458817008239 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 458817008240 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458817008241 ATP binding site [chemical binding]; other site 458817008242 Mg++ binding site [ion binding]; other site 458817008243 motif III; other site 458817008244 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 458817008245 nucleotide binding region [chemical binding]; other site 458817008246 ATP-binding site [chemical binding]; other site 458817008247 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 458817008248 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 458817008249 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 458817008250 Domain of unknown function DUF21; Region: DUF21; pfam01595 458817008251 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 458817008252 Transporter associated domain; Region: CorC_HlyC; pfam03471 458817008253 Domain of unknown function DUF21; Region: DUF21; pfam01595 458817008254 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 458817008255 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 458817008256 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 458817008257 putative peptidase; Provisional; Region: PRK11649 458817008258 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 458817008259 Peptidase family M23; Region: Peptidase_M23; pfam01551 458817008260 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 458817008261 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 458817008262 Walker A/P-loop; other site 458817008263 ATP binding site [chemical binding]; other site 458817008264 Q-loop/lid; other site 458817008265 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 458817008266 ABC transporter signature motif; other site 458817008267 Walker B; other site 458817008268 D-loop; other site 458817008269 H-loop/switch region; other site 458817008270 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 458817008271 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458817008272 active site 458817008273 metal binding site [ion binding]; metal-binding site 458817008274 DNA binding site [nucleotide binding] 458817008275 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 458817008276 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 458817008277 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 458817008278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817008279 homodimer interface [polypeptide binding]; other site 458817008280 catalytic residue [active] 458817008281 putative transporter; Provisional; Region: PRK03699 458817008282 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817008283 putative substrate translocation pore; other site 458817008284 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 458817008285 glutaminase; Reviewed; Region: PRK12356 458817008286 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 458817008287 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 458817008288 hypothetical protein; Provisional; Region: PRK10621 458817008289 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458817008290 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 458817008291 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817008292 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 458817008293 dimerization interface [polypeptide binding]; other site 458817008294 Nuclease-related domain; Region: NERD; pfam08378 458817008295 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 458817008296 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817008297 ATP binding site [chemical binding]; other site 458817008298 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 458817008299 substrate binding site [chemical binding]; other site 458817008300 activation loop (A-loop); other site 458817008301 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 458817008302 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 458817008303 RNA binding surface [nucleotide binding]; other site 458817008304 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 458817008305 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 458817008306 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 458817008307 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 458817008308 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817008309 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817008310 metal binding site [ion binding]; metal-binding site 458817008311 active site 458817008312 I-site; other site 458817008313 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 458817008314 TPR motif; other site 458817008315 binding surface 458817008316 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 458817008317 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 458817008318 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 458817008319 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 458817008320 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 458817008321 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 458817008322 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 458817008323 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 458817008324 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 458817008325 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 458817008326 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 458817008327 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 458817008328 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 458817008329 trimer interface [polypeptide binding]; other site 458817008330 eyelet of channel; other site 458817008331 DNA polymerase II; Reviewed; Region: PRK05762 458817008332 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 458817008333 active site 458817008334 catalytic site [active] 458817008335 substrate binding site [chemical binding]; other site 458817008336 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 458817008337 active site 458817008338 metal-binding site 458817008339 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 458817008340 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 458817008341 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 458817008342 hypothetical protein; Provisional; Region: PRK10621 458817008343 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458817008344 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 458817008345 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 458817008346 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 458817008347 Late competence development protein ComFB; Region: ComFB; pfam10719 458817008348 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 458817008349 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 458817008350 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817008351 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817008352 putative substrate translocation pore; other site 458817008353 phosphate acetyltransferase; Reviewed; Region: PRK05632 458817008354 DRTGG domain; Region: DRTGG; pfam07085 458817008355 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 458817008356 propionate/acetate kinase; Provisional; Region: PRK12379 458817008357 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 458817008358 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 458817008359 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 458817008360 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 458817008361 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 458817008362 (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 458817008363 dimer interaction site [polypeptide binding]; other site 458817008364 substrate-binding tunnel; other site 458817008365 active site 458817008366 catalytic site [active] 458817008367 substrate binding site [chemical binding]; other site 458817008368 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 458817008369 Coenzyme A transferase; Region: CoA_trans; smart00882 458817008370 Coenzyme A transferase; Region: CoA_trans; cl17247 458817008371 Lipase (class 2); Region: Lipase_2; pfam01674 458817008372 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 458817008373 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 458817008374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817008375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817008376 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 458817008377 putative effector binding pocket; other site 458817008378 dimerization interface [polypeptide binding]; other site 458817008379 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 458817008380 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 458817008381 NAD(P) binding site [chemical binding]; other site 458817008382 homotetramer interface [polypeptide binding]; other site 458817008383 homodimer interface [polypeptide binding]; other site 458817008384 active site 458817008385 putative acyltransferase; Provisional; Region: PRK05790 458817008386 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 458817008387 dimer interface [polypeptide binding]; other site 458817008388 active site 458817008389 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 458817008390 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 458817008391 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 458817008392 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 458817008393 transmembrane helices; other site 458817008394 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 458817008395 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 458817008396 homodimer interface [polypeptide binding]; other site 458817008397 substrate-cofactor binding pocket; other site 458817008398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817008399 catalytic residue [active] 458817008400 hypothetical protein; Provisional; Region: PRK05415 458817008401 Domain of unknown function (DUF697); Region: DUF697; pfam05128 458817008402 YcjX-like family, DUF463; Region: DUF463; pfam04317 458817008403 PspC domain; Region: PspC; cl00864 458817008404 phage shock protein C; Region: phageshock_pspC; TIGR02978 458817008405 phage shock protein B; Provisional; Region: pspB; PRK09458 458817008406 phage shock protein A; Region: phageshock_pspA; TIGR02977 458817008407 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 458817008408 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817008409 Walker A motif; other site 458817008410 ATP binding site [chemical binding]; other site 458817008411 Walker B motif; other site 458817008412 arginine finger; other site 458817008413 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817008414 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 458817008415 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 458817008416 peptide binding site [polypeptide binding]; other site 458817008417 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817008418 dimer interface [polypeptide binding]; other site 458817008419 conserved gate region; other site 458817008420 putative PBP binding loops; other site 458817008421 ABC-ATPase subunit interface; other site 458817008422 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 458817008423 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 458817008424 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817008425 dimer interface [polypeptide binding]; other site 458817008426 conserved gate region; other site 458817008427 putative PBP binding loops; other site 458817008428 ABC-ATPase subunit interface; other site 458817008429 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 458817008430 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 458817008431 Walker A/P-loop; other site 458817008432 ATP binding site [chemical binding]; other site 458817008433 Q-loop/lid; other site 458817008434 ABC transporter signature motif; other site 458817008435 Walker B; other site 458817008436 D-loop; other site 458817008437 H-loop/switch region; other site 458817008438 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 458817008439 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 458817008440 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 458817008441 Walker A/P-loop; other site 458817008442 ATP binding site [chemical binding]; other site 458817008443 Q-loop/lid; other site 458817008444 ABC transporter signature motif; other site 458817008445 Walker B; other site 458817008446 D-loop; other site 458817008447 H-loop/switch region; other site 458817008448 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 458817008449 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 458817008450 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 458817008451 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 458817008452 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 458817008453 periplasmic folding chaperone; Provisional; Region: PRK10788 458817008454 SurA N-terminal domain; Region: SurA_N_3; cl07813 458817008455 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 458817008456 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 458817008457 IHF dimer interface [polypeptide binding]; other site 458817008458 IHF - DNA interface [nucleotide binding]; other site 458817008459 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 458817008460 Found in ATP-dependent protease La (LON); Region: LON; smart00464 458817008461 Found in ATP-dependent protease La (LON); Region: LON; smart00464 458817008462 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817008463 Walker A motif; other site 458817008464 ATP binding site [chemical binding]; other site 458817008465 Walker B motif; other site 458817008466 arginine finger; other site 458817008467 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 458817008468 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 458817008469 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 458817008470 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817008471 Walker A motif; other site 458817008472 ATP binding site [chemical binding]; other site 458817008473 Walker B motif; other site 458817008474 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 458817008475 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 458817008476 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 458817008477 oligomer interface [polypeptide binding]; other site 458817008478 active site residues [active] 458817008479 trigger factor; Provisional; Region: tig; PRK01490 458817008480 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 458817008481 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 458817008482 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 458817008483 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 458817008484 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 458817008485 homodimer interface [polypeptide binding]; other site 458817008486 NADP binding site [chemical binding]; other site 458817008487 substrate binding site [chemical binding]; other site 458817008488 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 458817008489 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 458817008490 active site 458817008491 HIGH motif; other site 458817008492 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 458817008493 KMSKS motif; other site 458817008494 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 458817008495 tRNA binding surface [nucleotide binding]; other site 458817008496 anticodon binding site; other site 458817008497 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 458817008498 substrate binding site [chemical binding]; other site 458817008499 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458817008500 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 458817008501 putative active site [active] 458817008502 putative metal binding site [ion binding]; other site 458817008503 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 458817008504 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 458817008505 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458817008506 active site 458817008507 HIGH motif; other site 458817008508 nucleotide binding site [chemical binding]; other site 458817008509 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 458817008510 KMSKS motif; other site 458817008511 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 458817008512 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 458817008513 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 458817008514 G1 box; other site 458817008515 GTP/Mg2+ binding site [chemical binding]; other site 458817008516 Switch I region; other site 458817008517 G2 box; other site 458817008518 G3 box; other site 458817008519 Switch II region; other site 458817008520 G4 box; other site 458817008521 G5 box; other site 458817008522 Nucleoside recognition; Region: Gate; pfam07670 458817008523 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 458817008524 Nucleoside recognition; Region: Gate; pfam07670 458817008525 FeoA domain; Region: FeoA; pfam04023 458817008526 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817008527 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 458817008528 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 458817008529 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 458817008530 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817008531 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 458817008532 heme-binding residues [chemical binding]; other site 458817008533 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817008534 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817008535 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817008536 tail sheath stabilizer and completion protein; Provisional; Region: 15; PHA02556 458817008537 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817008538 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 458817008539 heme-binding residues [chemical binding]; other site 458817008540 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817008541 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 458817008542 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 458817008543 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 458817008544 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 458817008545 putative uracil binding site [chemical binding]; other site 458817008546 putative active site [active] 458817008547 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 458817008548 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 458817008549 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 458817008550 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 458817008551 outer membrane protein A; Reviewed; Region: PRK10808 458817008552 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817008553 ligand binding site [chemical binding]; other site 458817008554 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 458817008555 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 458817008556 salt bridge; other site 458817008557 non-specific DNA binding site [nucleotide binding]; other site 458817008558 sequence-specific DNA binding site [nucleotide binding]; other site 458817008559 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 458817008560 fructuronate transporter; Provisional; Region: PRK10034; cl15264 458817008561 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 458817008562 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 458817008563 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817008564 catalytic residue [active] 458817008565 Methyltransferase domain; Region: Methyltransf_23; pfam13489 458817008566 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 458817008567 S-adenosylmethionine binding site [chemical binding]; other site 458817008568 LPP20 lipoprotein; Region: LPP20; pfam02169 458817008569 LPP20 lipoprotein; Region: LPP20; pfam02169 458817008570 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 458817008571 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817008572 catalytic residue [active] 458817008573 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 458817008574 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 458817008575 active site 458817008576 substrate binding site [chemical binding]; other site 458817008577 metal binding site [ion binding]; metal-binding site 458817008578 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 458817008579 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 458817008580 active site 458817008581 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 458817008582 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 458817008583 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 458817008584 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 458817008585 putative N-terminal domain interface [polypeptide binding]; other site 458817008586 putative dimer interface [polypeptide binding]; other site 458817008587 putative substrate binding pocket (H-site) [chemical binding]; other site 458817008588 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 458817008589 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817008590 amphi-Trp domain; Region: amphi-Trp; TIGR04354 458817008591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008592 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 458817008593 NAD(P) binding site [chemical binding]; other site 458817008594 active site 458817008595 peptide synthase; Provisional; Region: PRK09274 458817008596 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 458817008597 acyl-activating enzyme (AAE) consensus motif; other site 458817008598 putative AMP binding site [chemical binding]; other site 458817008599 putative active site [active] 458817008600 putative CoA binding site [chemical binding]; other site 458817008601 haloalkane dehalogenase; Provisional; Region: PRK03592 458817008602 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 458817008603 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 458817008604 dimer interface [polypeptide binding]; other site 458817008605 active site 458817008606 CoA binding pocket [chemical binding]; other site 458817008607 Methyltransferase domain; Region: Methyltransf_32; pfam13679 458817008608 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 458817008609 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 458817008610 active site 458817008611 BCCT family transporter; Region: BCCT; pfam02028 458817008612 transcriptional regulator PhoU; Provisional; Region: PRK11115 458817008613 PhoU domain; Region: PhoU; pfam01895 458817008614 PhoU domain; Region: PhoU; pfam01895 458817008615 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 458817008616 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 458817008617 Walker A/P-loop; other site 458817008618 ATP binding site [chemical binding]; other site 458817008619 Q-loop/lid; other site 458817008620 ABC transporter signature motif; other site 458817008621 Walker B; other site 458817008622 D-loop; other site 458817008623 H-loop/switch region; other site 458817008624 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 458817008625 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 458817008626 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817008627 dimer interface [polypeptide binding]; other site 458817008628 conserved gate region; other site 458817008629 putative PBP binding loops; other site 458817008630 ABC-ATPase subunit interface; other site 458817008631 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 458817008632 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817008633 conserved gate region; other site 458817008634 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817008635 ABC-ATPase subunit interface; other site 458817008636 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 458817008637 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 458817008638 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817008639 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817008640 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817008641 metal binding site [ion binding]; metal-binding site 458817008642 active site 458817008643 I-site; other site 458817008644 alanine racemase; Reviewed; Region: PRK13340 458817008645 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2; Region: PLPDE_III_AR2; cd06826 458817008646 active site 458817008647 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458817008648 dimer interface [polypeptide binding]; other site 458817008649 substrate binding site [chemical binding]; other site 458817008650 catalytic residues [active] 458817008651 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817008652 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817008653 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458817008654 cryptic adenine deaminase; Provisional; Region: PRK10027 458817008655 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 458817008656 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 458817008657 active site 458817008658 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 458817008659 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 458817008660 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 458817008661 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 458817008662 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458817008663 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 458817008664 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 458817008665 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 458817008666 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 458817008667 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 458817008668 active site 458817008669 RNA/DNA hybrid binding site [nucleotide binding]; other site 458817008670 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 458817008671 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 458817008672 interface (dimer of trimers) [polypeptide binding]; other site 458817008673 Substrate-binding/catalytic site; other site 458817008674 Zn-binding sites [ion binding]; other site 458817008675 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 458817008676 ApbE family; Region: ApbE; pfam02424 458817008677 FMN-binding domain; Region: FMN_bind; pfam04205 458817008678 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 458817008679 L-aspartate oxidase; Provisional; Region: PRK06175 458817008680 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817008681 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817008682 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 458817008683 Mg2+ binding site [ion binding]; other site 458817008684 G-X-G motif; other site 458817008685 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817008686 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817008687 active site 458817008688 phosphorylation site [posttranslational modification] 458817008689 intermolecular recognition site; other site 458817008690 dimerization interface [polypeptide binding]; other site 458817008691 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 458817008692 DNA binding site [nucleotide binding] 458817008693 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458817008694 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 458817008695 dimerization interface [polypeptide binding]; other site 458817008696 DNA binding residues [nucleotide binding] 458817008697 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 458817008698 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 458817008699 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458817008700 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458817008701 Nucleoside recognition; Region: Gate; pfam07670 458817008702 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458817008703 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 458817008704 universal stress protein UspE; Provisional; Region: PRK11175 458817008705 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 458817008706 Ligand Binding Site [chemical binding]; other site 458817008707 Lactoylglutathione lyase and related lyases [Amino acid transport and metabolism]; Region: GloA; COG0346 458817008708 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 458817008709 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 458817008710 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817008711 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817008712 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 458817008713 dimerization interface [polypeptide binding]; other site 458817008714 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 458817008715 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817008716 putative metal dependent hydrolase; Provisional; Region: PRK11598 458817008717 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 458817008718 Sulfatase; Region: Sulfatase; pfam00884 458817008719 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 458817008720 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817008721 Walker A/P-loop; other site 458817008722 ATP binding site [chemical binding]; other site 458817008723 Q-loop/lid; other site 458817008724 ABC transporter signature motif; other site 458817008725 Walker B; other site 458817008726 D-loop; other site 458817008727 H-loop/switch region; other site 458817008728 ABC transporter; Region: ABC_tran_2; pfam12848 458817008729 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817008730 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 458817008731 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 458817008732 metal-binding site [ion binding] 458817008733 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 458817008734 Soluble P-type ATPase [General function prediction only]; Region: COG4087 458817008735 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 458817008736 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 458817008737 DNA binding residues [nucleotide binding] 458817008738 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 458817008739 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817008740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008741 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 458817008742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008743 NAD(P) binding site [chemical binding]; other site 458817008744 active site 458817008745 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 458817008746 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 458817008747 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 458817008748 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 458817008749 substrate binding site [chemical binding]; other site 458817008750 oxyanion hole (OAH) forming residues; other site 458817008751 trimer interface [polypeptide binding]; other site 458817008752 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 458817008753 enoyl-CoA hydratase; Provisional; Region: PRK09076 458817008754 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 458817008755 substrate binding site [chemical binding]; other site 458817008756 oxyanion hole (OAH) forming residues; other site 458817008757 trimer interface [polypeptide binding]; other site 458817008758 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 458817008759 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 458817008760 active site 458817008761 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 458817008762 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 458817008763 tetrameric interface [polypeptide binding]; other site 458817008764 NAD binding site [chemical binding]; other site 458817008765 catalytic residues [active] 458817008766 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 458817008767 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 458817008768 dimer interface [polypeptide binding]; other site 458817008769 active site 458817008770 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458817008771 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 458817008772 DNA binding residues [nucleotide binding] 458817008773 dimerization interface [polypeptide binding]; other site 458817008774 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 458817008775 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 458817008776 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 458817008777 homoserine O-succinyltransferase; Provisional; Region: PRK05368 458817008778 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 458817008779 proposed active site lysine [active] 458817008780 conserved cys residue [active] 458817008781 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 458817008782 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 458817008783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008784 NAD(P) binding site [chemical binding]; other site 458817008785 active site 458817008786 outer membrane protein W; Provisional; Region: PRK10959 458817008787 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817008788 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817008789 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817008790 multidrug efflux protein; Reviewed; Region: PRK09579 458817008791 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817008792 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817008793 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 458817008794 putative effector binding pocket; other site 458817008795 dimerization interface [polypeptide binding]; other site 458817008796 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 458817008797 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 458817008798 substrate binding site [chemical binding]; other site 458817008799 oxyanion hole (OAH) forming residues; other site 458817008800 trimer interface [polypeptide binding]; other site 458817008801 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 458817008802 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 458817008803 FeS/SAM binding site; other site 458817008804 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 458817008805 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 458817008806 acyl-CoA thioesterase II; Provisional; Region: PRK10526 458817008807 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 458817008808 active site 458817008809 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 458817008810 catalytic triad [active] 458817008811 dimer interface [polypeptide binding]; other site 458817008812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817008813 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 458817008814 NAD(P) binding site [chemical binding]; other site 458817008815 active site 458817008816 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 458817008817 UbiA prenyltransferase family; Region: UbiA; pfam01040 458817008818 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 458817008819 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 458817008820 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 458817008821 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 458817008822 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 458817008823 acyl-activating enzyme (AAE) consensus motif; other site 458817008824 AMP binding site [chemical binding]; other site 458817008825 active site 458817008826 CoA binding site [chemical binding]; other site 458817008827 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 458817008828 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 458817008829 DNA binding residues [nucleotide binding] 458817008830 putative dimer interface [polypeptide binding]; other site 458817008831 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 458817008832 isovaleryl-CoA dehydrogenase; Region: PLN02519 458817008833 substrate binding site [chemical binding]; other site 458817008834 FAD binding site [chemical binding]; other site 458817008835 catalytic base [active] 458817008836 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 458817008837 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 458817008838 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 458817008839 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 458817008840 substrate binding site [chemical binding]; other site 458817008841 oxyanion hole (OAH) forming residues; other site 458817008842 trimer interface [polypeptide binding]; other site 458817008843 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 458817008844 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458817008845 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 458817008846 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 458817008847 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 458817008848 carboxyltransferase (CT) interaction site; other site 458817008849 biotinylation site [posttranslational modification]; other site 458817008850 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 458817008851 lipoyl-biotinyl attachment site [posttranslational modification]; other site 458817008852 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 458817008853 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 458817008854 active site 458817008855 catalytic residues [active] 458817008856 metal binding site [ion binding]; metal-binding site 458817008857 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 458817008858 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 458817008859 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 458817008860 Protein export membrane protein; Region: SecD_SecF; cl14618 458817008861 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 458817008862 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817008863 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817008864 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817008865 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817008866 active site 458817008867 phosphorylation site [posttranslational modification] 458817008868 intermolecular recognition site; other site 458817008869 dimerization interface [polypeptide binding]; other site 458817008870 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 458817008871 DNA binding site [nucleotide binding] 458817008872 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817008873 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 458817008874 dimer interface [polypeptide binding]; other site 458817008875 phosphorylation site [posttranslational modification] 458817008876 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817008877 ATP binding site [chemical binding]; other site 458817008878 Mg2+ binding site [ion binding]; other site 458817008879 G-X-G motif; other site 458817008880 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 458817008881 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458817008882 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 458817008883 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 458817008884 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 458817008885 SCP-2 sterol transfer family; Region: SCP2; cl01225 458817008886 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 458817008887 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 458817008888 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 458817008889 homotrimer interaction site [polypeptide binding]; other site 458817008890 putative active site [active] 458817008891 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 458817008892 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 458817008893 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 458817008894 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 458817008895 molybdopterin cofactor binding site; other site 458817008896 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 458817008897 molybdopterin cofactor binding site; other site 458817008898 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 458817008899 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817008900 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 458817008901 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 458817008902 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 458817008903 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 458817008904 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 458817008905 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 458817008906 LemA family; Region: LemA; cl00742 458817008907 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 458817008908 thymidine kinase; Provisional; Region: PRK04296 458817008909 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 458817008910 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 458817008911 active site 458817008912 Zn binding site [ion binding]; other site 458817008913 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 458817008914 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 458817008915 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 458817008916 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 458817008917 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 458817008918 Ligand binding site [chemical binding]; other site 458817008919 Electron transfer flavoprotein domain; Region: ETF; pfam01012 458817008920 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 458817008921 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 458817008922 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 458817008923 active site 458817008924 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 458817008925 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 458817008926 active site 458817008927 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 458817008928 Amidohydrolase; Region: Amidohydro_4; pfam13147 458817008929 active site 458817008930 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 458817008931 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 458817008932 homodimer interaction site [polypeptide binding]; other site 458817008933 cofactor binding site; other site 458817008934 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 458817008935 putative trimer interface [polypeptide binding]; other site 458817008936 putative acyl transferase; Provisional; Region: PRK10191 458817008937 putative CoA binding site [chemical binding]; other site 458817008938 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 458817008939 trimer interface [polypeptide binding]; other site 458817008940 active site 458817008941 substrate binding site [chemical binding]; other site 458817008942 CoA binding site [chemical binding]; other site 458817008943 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 458817008944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817008945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817008946 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 458817008947 dimerization interface [polypeptide binding]; other site 458817008948 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 458817008949 FeS/SAM binding site; other site 458817008950 Coenzyme A transferase; Region: CoA_trans; cl17247 458817008951 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 458817008952 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 458817008953 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 458817008954 inhibitor-cofactor binding pocket; inhibition site 458817008955 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817008956 catalytic residue [active] 458817008957 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 458817008958 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 458817008959 dimer interface [polypeptide binding]; other site 458817008960 active site 458817008961 Predicted amidohydrolase [General function prediction only]; Region: COG0388 458817008962 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 458817008963 putative active site [active] 458817008964 catalytic triad [active] 458817008965 putative dimer interface [polypeptide binding]; other site 458817008966 prolyl-tRNA synthetase; Provisional; Region: PRK09194 458817008967 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 458817008968 dimer interface [polypeptide binding]; other site 458817008969 motif 1; other site 458817008970 active site 458817008971 motif 2; other site 458817008972 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 458817008973 putative deacylase active site [active] 458817008974 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 458817008975 active site 458817008976 motif 3; other site 458817008977 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 458817008978 anticodon binding site; other site 458817008979 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 458817008980 nucleophile elbow; other site 458817008981 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 458817008982 active site 458817008983 catalytic triad [active] 458817008984 oxyanion hole [active] 458817008985 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 458817008986 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 458817008987 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 458817008988 TrkA-N domain; Region: TrkA_N; pfam02254 458817008989 TrkA-C domain; Region: TrkA_C; pfam02080 458817008990 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817008991 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817008992 metal binding site [ion binding]; metal-binding site 458817008993 active site 458817008994 I-site; other site 458817008995 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 458817008996 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 458817008997 Ligand Binding Site [chemical binding]; other site 458817008998 TilS substrate binding domain; Region: TilS; pfam09179 458817008999 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 458817009000 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 458817009001 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 458817009002 putative active site [active] 458817009003 putative PHP Thumb interface [polypeptide binding]; other site 458817009004 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 458817009005 generic binding surface II; other site 458817009006 generic binding surface I; other site 458817009007 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 458817009008 RNA/DNA hybrid binding site [nucleotide binding]; other site 458817009009 active site 458817009010 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 458817009011 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 458817009012 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 458817009013 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 458817009014 active site 458817009015 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 458817009016 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 458817009017 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 458817009018 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 458817009019 trimer interface [polypeptide binding]; other site 458817009020 active site 458817009021 UDP-GlcNAc binding site [chemical binding]; other site 458817009022 lipid binding site [chemical binding]; lipid-binding site 458817009023 periplasmic chaperone; Provisional; Region: PRK10780 458817009024 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 458817009025 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 458817009026 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 458817009027 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 458817009028 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 458817009029 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 458817009030 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 458817009031 Surface antigen; Region: Bac_surface_Ag; pfam01103 458817009032 zinc metallopeptidase RseP; Provisional; Region: PRK10779 458817009033 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 458817009034 active site 458817009035 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 458817009036 protein binding site [polypeptide binding]; other site 458817009037 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 458817009038 protein binding site [polypeptide binding]; other site 458817009039 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 458817009040 putative substrate binding region [chemical binding]; other site 458817009041 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 458817009042 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 458817009043 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 458817009044 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 458817009045 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 458817009046 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 458817009047 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 458817009048 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 458817009049 catalytic residue [active] 458817009050 putative FPP diphosphate binding site; other site 458817009051 putative FPP binding hydrophobic cleft; other site 458817009052 dimer interface [polypeptide binding]; other site 458817009053 putative IPP diphosphate binding site; other site 458817009054 ribosome recycling factor; Reviewed; Region: frr; PRK00083 458817009055 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 458817009056 hinge region; other site 458817009057 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 458817009058 putative nucleotide binding site [chemical binding]; other site 458817009059 uridine monophosphate binding site [chemical binding]; other site 458817009060 homohexameric interface [polypeptide binding]; other site 458817009061 elongation factor Ts; Provisional; Region: tsf; PRK09377 458817009062 UBA/TS-N domain; Region: UBA; pfam00627 458817009063 Elongation factor TS; Region: EF_TS; pfam00889 458817009064 Elongation factor TS; Region: EF_TS; pfam00889 458817009065 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 458817009066 rRNA interaction site [nucleotide binding]; other site 458817009067 S8 interaction site; other site 458817009068 putative laminin-1 binding site; other site 458817009069 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 458817009070 active site 458817009071 PII uridylyl-transferase; Provisional; Region: PRK05007 458817009072 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 458817009073 metal binding triad; other site 458817009074 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 458817009075 HD domain; Region: HD; pfam01966 458817009076 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 458817009077 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 458817009078 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 458817009079 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 458817009080 trimer interface [polypeptide binding]; other site 458817009081 active site 458817009082 substrate binding site [chemical binding]; other site 458817009083 CoA binding site [chemical binding]; other site 458817009084 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 458817009085 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 458817009086 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 458817009087 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 458817009088 putative active site [active] 458817009089 putative substrate binding site [chemical binding]; other site 458817009090 putative cosubstrate binding site; other site 458817009091 catalytic site [active] 458817009092 flavodoxin; Provisional; Region: PRK08105 458817009093 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 458817009094 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 458817009095 probable active site [active] 458817009096 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 458817009097 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 458817009098 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 458817009099 Protein of unknown function (DUF962); Region: DUF962; cl01879 458817009100 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 458817009101 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 458817009102 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 458817009103 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 458817009104 SecY interacting protein Syd; Provisional; Region: PRK04968 458817009105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 458817009106 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 458817009107 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 458817009108 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 458817009109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817009110 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 458817009111 putative substrate binding pocket [chemical binding]; other site 458817009112 putative dimerization interface [polypeptide binding]; other site 458817009113 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 458817009114 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817009115 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 458817009116 putative substrate binding pocket [chemical binding]; other site 458817009117 putative dimerization interface [polypeptide binding]; other site 458817009118 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 458817009119 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 458817009120 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 458817009121 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 458817009122 elongation factor G; Reviewed; Region: PRK13351 458817009123 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 458817009124 G1 box; other site 458817009125 GTP/Mg2+ binding site [chemical binding]; other site 458817009126 G2 box; other site 458817009127 Switch I region; other site 458817009128 G3 box; other site 458817009129 Switch II region; other site 458817009130 G4 box; other site 458817009131 G5 box; other site 458817009132 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 458817009133 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 458817009134 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 458817009135 Homeodomain-like domain; Region: HTH_23; pfam13384 458817009136 Winged helix-turn helix; Region: HTH_29; pfam13551 458817009137 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 458817009138 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 458817009139 active site 458817009140 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 458817009141 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 458817009142 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 458817009143 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 458817009144 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 458817009145 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 458817009146 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 458817009147 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 458817009148 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 458817009149 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 458817009150 putative NADP binding site [chemical binding]; other site 458817009151 active site 458817009152 Acyl transferase domain; Region: Acyl_transf_1; cl08282 458817009153 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 458817009154 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 458817009155 active site 458817009156 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 458817009157 active site 458817009158 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 458817009159 active site 2 [active] 458817009160 dimer interface [polypeptide binding]; other site 458817009161 active site 1 [active] 458817009162 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 458817009163 active site 1 [active] 458817009164 dimer interface [polypeptide binding]; other site 458817009165 active site 2 [active] 458817009166 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 458817009167 FMN binding site [chemical binding]; other site 458817009168 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 458817009169 substrate binding site [chemical binding]; other site 458817009170 putative catalytic residue [active] 458817009171 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 458817009172 CHASE4 domain; Region: CHASE4; pfam05228 458817009173 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817009174 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817009175 metal binding site [ion binding]; metal-binding site 458817009176 active site 458817009177 I-site; other site 458817009178 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 458817009179 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 458817009180 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 458817009181 active site 458817009182 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 458817009183 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 458817009184 ATP binding site [chemical binding]; other site 458817009185 Mg++ binding site [ion binding]; other site 458817009186 motif III; other site 458817009187 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 458817009188 nucleotide binding region [chemical binding]; other site 458817009189 ATP-binding site [chemical binding]; other site 458817009190 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 458817009191 amidohydrolase; Region: amidohydrolases; TIGR01891 458817009192 metal binding site [ion binding]; metal-binding site 458817009193 putative dimer interface [polypeptide binding]; other site 458817009194 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 458817009195 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 458817009196 N-terminal plug; other site 458817009197 ligand-binding site [chemical binding]; other site 458817009198 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 458817009199 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 458817009200 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 458817009201 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 458817009202 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817009203 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817009204 active site 458817009205 phosphorylation site [posttranslational modification] 458817009206 intermolecular recognition site; other site 458817009207 dimerization interface [polypeptide binding]; other site 458817009208 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 458817009209 DNA binding site [nucleotide binding] 458817009210 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817009211 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817009212 ATP binding site [chemical binding]; other site 458817009213 Mg2+ binding site [ion binding]; other site 458817009214 G-X-G motif; other site 458817009215 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 458817009216 Leucine rich repeat; Region: LRR_8; pfam13855 458817009217 Leucine rich repeat; Region: LRR_8; pfam13855 458817009218 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 458817009219 Catalytic domain of Protein Kinases; Region: PKc; cd00180 458817009220 active site 458817009221 ATP binding site [chemical binding]; other site 458817009222 substrate binding site [chemical binding]; other site 458817009223 activation loop (A-loop); other site 458817009224 Protein of unknown function, DUF599; Region: DUF599; pfam04654 458817009225 hypothetical protein; Provisional; Region: PRK11038 458817009226 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 458817009227 peptidase T; Region: peptidase-T; TIGR01882 458817009228 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 458817009229 metal binding site [ion binding]; metal-binding site 458817009230 dimer interface [polypeptide binding]; other site 458817009231 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 458817009232 NAD(P) binding site [chemical binding]; other site 458817009233 active site 458817009234 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 458817009235 Family of unknown function (DUF633); Region: DUF633; pfam04816 458817009236 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_27; cd04686 458817009237 nudix motif; other site 458817009238 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 458817009239 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817009240 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 458817009241 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 458817009242 putative kinase; Provisional; Region: PRK09954 458817009243 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 458817009244 putative DNA binding site [nucleotide binding]; other site 458817009245 putative Zn2+ binding site [ion binding]; other site 458817009246 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 458817009247 substrate binding site [chemical binding]; other site 458817009248 ATP binding site [chemical binding]; other site 458817009249 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 458817009250 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 458817009251 TrkA-C domain; Region: TrkA_C; pfam02080 458817009252 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 458817009253 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 458817009254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817009255 catalytic residue [active] 458817009256 Uncharacterized conserved protein [Function unknown]; Region: COG1359 458817009257 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 458817009258 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 458817009259 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 458817009260 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 458817009261 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 458817009262 YfaZ precursor; Region: YfaZ; pfam07437 458817009263 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 458817009264 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 458817009265 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 458817009266 catalytic residues [active] 458817009267 dimer interface [polypeptide binding]; other site 458817009268 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 458817009269 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458817009270 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 458817009271 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 458817009272 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 458817009273 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 458817009274 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 458817009275 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 458817009276 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 458817009277 active site 458817009278 Zn binding site [ion binding]; other site 458817009279 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 458817009280 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 458817009281 PBP superfamily domain; Region: PBP_like_2; cl17296 458817009282 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 458817009283 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 458817009284 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 458817009285 putative active site [active] 458817009286 heme pocket [chemical binding]; other site 458817009287 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 458817009288 dimer interface [polypeptide binding]; other site 458817009289 phosphorylation site [posttranslational modification] 458817009290 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817009291 ATP binding site [chemical binding]; other site 458817009292 Mg2+ binding site [ion binding]; other site 458817009293 G-X-G motif; other site 458817009294 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 458817009295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817009296 active site 458817009297 phosphorylation site [posttranslational modification] 458817009298 intermolecular recognition site; other site 458817009299 dimerization interface [polypeptide binding]; other site 458817009300 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 458817009301 DNA binding site [nucleotide binding] 458817009302 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 458817009303 trimer interface [polypeptide binding]; other site 458817009304 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 458817009305 eyelet of channel; other site 458817009306 recombination associated protein; Reviewed; Region: rdgC; PRK00321 458817009307 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 458817009308 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 458817009309 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 458817009310 protein binding site [polypeptide binding]; other site 458817009311 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 458817009312 TPR motif; other site 458817009313 binding surface 458817009314 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817009315 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817009316 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 458817009317 binding surface 458817009318 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817009319 TPR motif; other site 458817009320 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817009321 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817009322 metal binding site [ion binding]; metal-binding site 458817009323 active site 458817009324 I-site; other site 458817009325 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 458817009326 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 458817009327 flap endonuclease-like protein; Provisional; Region: PRK09482 458817009328 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 458817009329 active site 458817009330 metal binding site 1 [ion binding]; metal-binding site 458817009331 putative 5' ssDNA interaction site; other site 458817009332 metal binding site 3; metal-binding site 458817009333 metal binding site 2 [ion binding]; metal-binding site 458817009334 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 458817009335 putative DNA binding site [nucleotide binding]; other site 458817009336 putative metal binding site [ion binding]; other site 458817009337 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 458817009338 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458817009339 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817009340 isocitrate dehydrogenase; Provisional; Region: PRK08997 458817009341 tartrate dehydrogenase; Region: TTC; TIGR02089 458817009342 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 458817009343 FtsJ-like methyltransferase; Region: FtsJ; cl17430 458817009344 Protein of unknown function (DUF423); Region: DUF423; pfam04241 458817009345 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 458817009346 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 458817009347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817009348 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 458817009349 dimerization interface [polypeptide binding]; other site 458817009350 substrate binding pocket [chemical binding]; other site 458817009351 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 458817009352 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 458817009353 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 458817009354 Ligand Binding Site [chemical binding]; other site 458817009355 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 458817009356 active site residue [active] 458817009357 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 458817009358 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 458817009359 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817009360 ligand binding site [chemical binding]; other site 458817009361 flagellar motor protein PomA; Reviewed; Region: PRK08990 458817009362 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 458817009363 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 458817009364 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 458817009365 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 458817009366 substrate binding pocket [chemical binding]; other site 458817009367 chain length determination region; other site 458817009368 substrate-Mg2+ binding site; other site 458817009369 catalytic residues [active] 458817009370 aspartate-rich region 1; other site 458817009371 active site lid residues [active] 458817009372 aspartate-rich region 2; other site 458817009373 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 458817009374 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 458817009375 TPP-binding site; other site 458817009376 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 458817009377 PYR/PP interface [polypeptide binding]; other site 458817009378 dimer interface [polypeptide binding]; other site 458817009379 TPP binding site [chemical binding]; other site 458817009380 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 458817009381 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 458817009382 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 458817009383 dimer interface [polypeptide binding]; other site 458817009384 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 458817009385 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 458817009386 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 458817009387 L-lactate permease; Region: Lactate_perm; cl00701 458817009388 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 458817009389 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 458817009390 FAD binding domain; Region: FAD_binding_4; pfam01565 458817009391 4Fe-4S binding domain; Region: Fer4; pfam00037 458817009392 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 458817009393 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 458817009394 Cysteine-rich domain; Region: CCG; pfam02754 458817009395 Cysteine-rich domain; Region: CCG; pfam02754 458817009396 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 458817009397 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 458817009398 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 458817009399 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 458817009400 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 458817009401 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 458817009402 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 458817009403 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 458817009404 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 458817009405 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 458817009406 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458817009407 ATP binding site [chemical binding]; other site 458817009408 Mg++ binding site [ion binding]; other site 458817009409 motif III; other site 458817009410 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 458817009411 nucleotide binding region [chemical binding]; other site 458817009412 ATP-binding site [chemical binding]; other site 458817009413 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817009414 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 458817009415 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 458817009416 putative active site [active] 458817009417 heme pocket [chemical binding]; other site 458817009418 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 458817009419 putative active site [active] 458817009420 heme pocket [chemical binding]; other site 458817009421 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 458817009422 PAS domain; Region: PAS_9; pfam13426 458817009423 putative active site [active] 458817009424 heme pocket [chemical binding]; other site 458817009425 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817009426 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817009427 metal binding site [ion binding]; metal-binding site 458817009428 active site 458817009429 I-site; other site 458817009430 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 458817009431 OsmC-like protein; Region: OsmC; pfam02566 458817009432 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 458817009433 active site 458817009434 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817009435 metal binding site [ion binding]; metal-binding site 458817009436 active site 458817009437 I-site; other site 458817009438 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 458817009439 HDOD domain; Region: HDOD; pfam08668 458817009440 putative protease; Provisional; Region: PRK15452 458817009441 Peptidase family U32; Region: Peptidase_U32; pfam01136 458817009442 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 458817009443 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 458817009444 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 458817009445 active site 458817009446 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 458817009447 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 458817009448 Helix-turn-helix domain; Region: HTH_18; pfam12833 458817009449 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817009450 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 458817009451 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 458817009452 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 458817009453 active site 458817009454 SCP-2 sterol transfer family; Region: SCP2; cl01225 458817009455 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 458817009456 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 458817009457 Peptidase family U32; Region: Peptidase_U32; pfam01136 458817009458 putative protease; Provisional; Region: PRK15447 458817009459 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 458817009460 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 458817009461 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 458817009462 substrate binding site [chemical binding]; other site 458817009463 catalytic Zn binding site [ion binding]; other site 458817009464 NAD binding site [chemical binding]; other site 458817009465 structural Zn binding site [ion binding]; other site 458817009466 dimer interface [polypeptide binding]; other site 458817009467 Predicted membrane protein [Function unknown]; Region: COG3371 458817009468 Protein of unknown function (DUF998); Region: DUF998; pfam06197 458817009469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 458817009470 Nucleoside recognition; Region: Gate; pfam07670 458817009471 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458817009472 DEAD-like helicases superfamily; Region: DEXDc; smart00487 458817009473 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 458817009474 ATP binding site [chemical binding]; other site 458817009475 Mg++ binding site [ion binding]; other site 458817009476 motif III; other site 458817009477 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 458817009478 nucleotide binding region [chemical binding]; other site 458817009479 ATP-binding site [chemical binding]; other site 458817009480 Surface antigen; Region: Bac_surface_Ag; pfam01103 458817009481 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 458817009482 PilZ domain; Region: PilZ; pfam07238 458817009483 DNA repair protein RadA; Provisional; Region: PRK11823 458817009484 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 458817009485 Walker A motif; other site 458817009486 ATP binding site [chemical binding]; other site 458817009487 Walker B motif; other site 458817009488 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 458817009489 PilZ domain; Region: PilZ; pfam07238 458817009490 PilZ domain; Region: PilZ; pfam07238 458817009491 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 458817009492 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 458817009493 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 458817009494 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 458817009495 Sulfatase; Region: Sulfatase; pfam00884 458817009496 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 458817009497 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 458817009498 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 458817009499 thiosulfate reductase PhsA; Provisional; Region: PRK15488 458817009500 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 458817009501 putative [Fe4-S4] binding site [ion binding]; other site 458817009502 putative molybdopterin cofactor binding site [chemical binding]; other site 458817009503 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 458817009504 putative molybdopterin cofactor binding site; other site 458817009505 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 458817009506 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 458817009507 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 458817009508 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 458817009509 dimer interface [polypeptide binding]; other site 458817009510 phosphorylation site [posttranslational modification] 458817009511 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817009512 ATP binding site [chemical binding]; other site 458817009513 Mg2+ binding site [ion binding]; other site 458817009514 G-X-G motif; other site 458817009515 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 458817009516 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817009517 active site 458817009518 phosphorylation site [posttranslational modification] 458817009519 intermolecular recognition site; other site 458817009520 dimerization interface [polypeptide binding]; other site 458817009521 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 458817009522 DNA binding residues [nucleotide binding] 458817009523 dimerization interface [polypeptide binding]; other site 458817009524 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458817009525 phosphoserine phosphatase SerB; Region: serB; TIGR00338 458817009526 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 458817009527 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 458817009528 motif II; other site 458817009529 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 458817009530 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 458817009531 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 458817009532 phosphopentomutase; Provisional; Region: PRK05362 458817009533 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 458817009534 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 458817009535 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 458817009536 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 458817009537 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 458817009538 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 458817009539 intersubunit interface [polypeptide binding]; other site 458817009540 active site 458817009541 catalytic residue [active] 458817009542 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 458817009543 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458817009544 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458817009545 Nucleoside recognition; Region: Gate; pfam07670 458817009546 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458817009547 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 458817009548 active site 458817009549 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 458817009550 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 458817009551 G1 box; other site 458817009552 putative GEF interaction site [polypeptide binding]; other site 458817009553 GTP/Mg2+ binding site [chemical binding]; other site 458817009554 Switch I region; other site 458817009555 G2 box; other site 458817009556 G3 box; other site 458817009557 Switch II region; other site 458817009558 G4 box; other site 458817009559 G5 box; other site 458817009560 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 458817009561 lipoprotein NlpI; Provisional; Region: PRK11189 458817009562 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 458817009563 binding surface 458817009564 TPR motif; other site 458817009565 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 458817009566 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 458817009567 RNase E interface [polypeptide binding]; other site 458817009568 trimer interface [polypeptide binding]; other site 458817009569 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 458817009570 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 458817009571 RNase E interface [polypeptide binding]; other site 458817009572 trimer interface [polypeptide binding]; other site 458817009573 active site 458817009574 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 458817009575 putative nucleic acid binding region [nucleotide binding]; other site 458817009576 G-X-X-G motif; other site 458817009577 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 458817009578 RNA binding site [nucleotide binding]; other site 458817009579 domain interface; other site 458817009580 putative diguanylate cyclase; Provisional; Region: PRK13561 458817009581 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 458817009582 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817009583 metal binding site [ion binding]; metal-binding site 458817009584 active site 458817009585 I-site; other site 458817009586 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 458817009587 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 458817009588 16S/18S rRNA binding site [nucleotide binding]; other site 458817009589 S13e-L30e interaction site [polypeptide binding]; other site 458817009590 25S rRNA binding site [nucleotide binding]; other site 458817009591 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 458817009592 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 458817009593 RNA binding site [nucleotide binding]; other site 458817009594 active site 458817009595 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 458817009596 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 458817009597 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 458817009598 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 458817009599 translation initiation factor IF-2; Region: IF-2; TIGR00487 458817009600 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 458817009601 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 458817009602 G1 box; other site 458817009603 putative GEF interaction site [polypeptide binding]; other site 458817009604 GTP/Mg2+ binding site [chemical binding]; other site 458817009605 Switch I region; other site 458817009606 G2 box; other site 458817009607 G3 box; other site 458817009608 Switch II region; other site 458817009609 G4 box; other site 458817009610 G5 box; other site 458817009611 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 458817009612 Translation-initiation factor 2; Region: IF-2; pfam11987 458817009613 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 458817009614 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 458817009615 NusA N-terminal domain; Region: NusA_N; pfam08529 458817009616 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 458817009617 RNA binding site [nucleotide binding]; other site 458817009618 homodimer interface [polypeptide binding]; other site 458817009619 NusA-like KH domain; Region: KH_5; pfam13184 458817009620 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 458817009621 G-X-X-G motif; other site 458817009622 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 458817009623 ribosome maturation protein RimP; Reviewed; Region: PRK00092 458817009624 Sm and related proteins; Region: Sm_like; cl00259 458817009625 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 458817009626 putative oligomer interface [polypeptide binding]; other site 458817009627 putative RNA binding site [nucleotide binding]; other site 458817009628 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 458817009629 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 458817009630 triosephosphate isomerase; Provisional; Region: PRK14567 458817009631 substrate binding site [chemical binding]; other site 458817009632 dimer interface [polypeptide binding]; other site 458817009633 catalytic triad [active] 458817009634 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 458817009635 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 458817009636 active site 458817009637 substrate binding site [chemical binding]; other site 458817009638 metal binding site [ion binding]; metal-binding site 458817009639 dihydropteroate synthase; Region: DHPS; TIGR01496 458817009640 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 458817009641 substrate binding pocket [chemical binding]; other site 458817009642 dimer interface [polypeptide binding]; other site 458817009643 inhibitor binding site; inhibition site 458817009644 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 458817009645 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817009646 Walker A motif; other site 458817009647 ATP binding site [chemical binding]; other site 458817009648 Walker B motif; other site 458817009649 arginine finger; other site 458817009650 Peptidase family M41; Region: Peptidase_M41; pfam01434 458817009651 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 458817009652 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 458817009653 S-adenosylmethionine binding site [chemical binding]; other site 458817009654 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 458817009655 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 458817009656 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 458817009657 Protein export membrane protein; Region: SecD_SecF; pfam02355 458817009658 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 458817009659 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 458817009660 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 458817009661 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 458817009662 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 458817009663 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 458817009664 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 458817009665 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458817009666 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 458817009667 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 458817009668 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 458817009669 ATP-grasp domain; Region: ATP-grasp_4; cl17255 458817009670 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 458817009671 IMP binding site; other site 458817009672 dimer interface [polypeptide binding]; other site 458817009673 interdomain contacts; other site 458817009674 partial ornithine binding site; other site 458817009675 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 458817009676 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 458817009677 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 458817009678 catalytic site [active] 458817009679 subunit interface [polypeptide binding]; other site 458817009680 dihydrodipicolinate reductase; Provisional; Region: PRK00048 458817009681 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 458817009682 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 458817009683 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 458817009684 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 458817009685 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 458817009686 Peptidase family M48; Region: Peptidase_M48; pfam01435 458817009687 chaperone protein DnaJ; Provisional; Region: PRK10767 458817009688 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 458817009689 HSP70 interaction site [polypeptide binding]; other site 458817009690 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 458817009691 substrate binding site [polypeptide binding]; other site 458817009692 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 458817009693 Zn binding sites [ion binding]; other site 458817009694 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 458817009695 dimer interface [polypeptide binding]; other site 458817009696 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 458817009697 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 458817009698 nucleotide binding site [chemical binding]; other site 458817009699 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 458817009700 EamA-like transporter family; Region: EamA; pfam00892 458817009701 EamA-like transporter family; Region: EamA; pfam00892 458817009702 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 458817009703 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 458817009704 putative catalytic cysteine [active] 458817009705 gamma-glutamyl kinase; Provisional; Region: PRK05429 458817009706 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 458817009707 nucleotide binding site [chemical binding]; other site 458817009708 homotetrameric interface [polypeptide binding]; other site 458817009709 putative phosphate binding site [ion binding]; other site 458817009710 putative allosteric binding site; other site 458817009711 PUA domain; Region: PUA; pfam01472 458817009712 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458817009713 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817009714 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 458817009715 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817009716 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817009717 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817009718 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 458817009719 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 458817009720 metal binding site [ion binding]; metal-binding site 458817009721 dimer interface [polypeptide binding]; other site 458817009722 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 458817009723 active site 458817009724 DNA polymerase IV; Validated; Region: PRK02406 458817009725 DNA binding site [nucleotide binding] 458817009726 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 458817009727 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 458817009728 heme binding site [chemical binding]; other site 458817009729 ferroxidase pore; other site 458817009730 ferroxidase diiron center [ion binding]; other site 458817009731 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 458817009732 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 458817009733 heme binding site [chemical binding]; other site 458817009734 ferroxidase pore; other site 458817009735 ferroxidase diiron center [ion binding]; other site 458817009736 Protein of unknown function (DUF539); Region: DUF539; cl01129 458817009737 Photosystem II Pbs27; Region: PSII_Pbs27; cl11841 458817009738 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 458817009739 ApbE family; Region: ApbE; pfam02424 458817009740 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 458817009741 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 458817009742 catalytic loop [active] 458817009743 iron binding site [ion binding]; other site 458817009744 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 458817009745 FAD binding pocket [chemical binding]; other site 458817009746 FAD binding motif [chemical binding]; other site 458817009747 phosphate binding motif [ion binding]; other site 458817009748 beta-alpha-beta structure motif; other site 458817009749 NAD binding pocket [chemical binding]; other site 458817009750 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 458817009751 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 458817009752 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 458817009753 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 458817009754 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 458817009755 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 458817009756 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 458817009757 E3 interaction surface; other site 458817009758 lipoyl attachment site [posttranslational modification]; other site 458817009759 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 458817009760 S-ribosylhomocysteinase; Provisional; Region: PRK02260 458817009761 BolA-like protein; Region: BolA; cl00386 458817009762 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 458817009763 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 458817009764 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 458817009765 S-adenosylmethionine binding site [chemical binding]; other site 458817009766 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 458817009767 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 458817009768 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 458817009769 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 458817009770 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 458817009771 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 458817009772 substrate binding site [chemical binding]; other site 458817009773 AmpG-like permease; Region: 2A0125; TIGR00901 458817009774 muropeptide transporter; Reviewed; Region: ampG; PRK11902 458817009775 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 458817009776 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 458817009777 Predicted integral membrane protein [Function unknown]; Region: COG5652 458817009778 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 458817009779 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 458817009780 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 458817009781 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 458817009782 Na2 binding site [ion binding]; other site 458817009783 putative substrate binding site 1 [chemical binding]; other site 458817009784 Na binding site 1 [ion binding]; other site 458817009785 putative substrate binding site 2 [chemical binding]; other site 458817009786 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 458817009787 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 458817009788 active site 458817009789 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 458817009790 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 458817009791 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 458817009792 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 458817009793 Protein of unknown function (DUF819); Region: DUF819; cl02317 458817009794 Uncharacterized conserved protein [Function unknown]; Region: COG2912 458817009795 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 458817009796 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 458817009797 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 458817009798 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 458817009799 S-adenosylmethionine binding site [chemical binding]; other site 458817009800 peptide chain release factor 1; Validated; Region: prfA; PRK00591 458817009801 This domain is found in peptide chain release factors; Region: PCRF; smart00937 458817009802 RF-1 domain; Region: RF-1; pfam00472 458817009803 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 458817009804 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 458817009805 tRNA; other site 458817009806 putative tRNA binding site [nucleotide binding]; other site 458817009807 putative NADP binding site [chemical binding]; other site 458817009808 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 458817009809 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 458817009810 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 458817009811 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 458817009812 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 458817009813 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 458817009814 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 458817009815 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 458817009816 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 458817009817 active site 458817009818 GTP-binding protein YchF; Reviewed; Region: PRK09601 458817009819 YchF GTPase; Region: YchF; cd01900 458817009820 G1 box; other site 458817009821 GTP/Mg2+ binding site [chemical binding]; other site 458817009822 Switch I region; other site 458817009823 G2 box; other site 458817009824 Switch II region; other site 458817009825 G3 box; other site 458817009826 G4 box; other site 458817009827 G5 box; other site 458817009828 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 458817009829 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 458817009830 putative active site [active] 458817009831 catalytic residue [active] 458817009832 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 458817009833 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 458817009834 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 458817009835 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 458817009836 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 458817009837 FeS/SAM binding site; other site 458817009838 TRAM domain; Region: TRAM; pfam01938 458817009839 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 458817009840 PhoH-like protein; Region: PhoH; pfam02562 458817009841 metal-binding heat shock protein; Provisional; Region: PRK00016 458817009842 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 458817009843 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 458817009844 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 458817009845 Transporter associated domain; Region: CorC_HlyC; smart01091 458817009846 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 458817009847 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 458817009848 putative active site [active] 458817009849 catalytic triad [active] 458817009850 putative dimer interface [polypeptide binding]; other site 458817009851 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 458817009852 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 458817009853 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 458817009854 HIGH motif; other site 458817009855 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 458817009856 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 458817009857 active site 458817009858 KMSKS motif; other site 458817009859 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 458817009860 tRNA binding surface [nucleotide binding]; other site 458817009861 Lipopolysaccharide-assembly; Region: LptE; cl01125 458817009862 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 458817009863 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 458817009864 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 458817009865 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 458817009866 active site 458817009867 (T/H)XGH motif; other site 458817009868 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 458817009869 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 458817009870 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 458817009871 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 458817009872 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 458817009873 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 458817009874 Transglycosylase SLT domain; Region: SLT_2; pfam13406 458817009875 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 458817009876 N-acetyl-D-glucosamine binding site [chemical binding]; other site 458817009877 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 458817009878 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 458817009879 Sporulation related domain; Region: SPOR; pfam05036 458817009880 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 458817009881 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 458817009882 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 458817009883 hypothetical protein; Provisional; Region: PRK04998 458817009884 lipoate-protein ligase B; Provisional; Region: PRK14342 458817009885 lipoyl synthase; Provisional; Region: PRK05481 458817009886 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 458817009887 FeS/SAM binding site; other site 458817009888 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 458817009889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817009890 Coenzyme A binding pocket [chemical binding]; other site 458817009891 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 458817009892 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 458817009893 Clp amino terminal domain; Region: Clp_N; pfam02861 458817009894 Clp amino terminal domain; Region: Clp_N; pfam02861 458817009895 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817009896 Walker A motif; other site 458817009897 ATP binding site [chemical binding]; other site 458817009898 Walker B motif; other site 458817009899 arginine finger; other site 458817009900 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817009901 Walker A motif; other site 458817009902 ATP binding site [chemical binding]; other site 458817009903 Walker B motif; other site 458817009904 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 458817009905 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 458817009906 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 458817009907 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 458817009908 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 458817009909 RNA binding surface [nucleotide binding]; other site 458817009910 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 458817009911 active site 458817009912 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 458817009913 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 458817009914 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 458817009915 dimerization interface [polypeptide binding]; other site 458817009916 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817009917 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817009918 dimer interface [polypeptide binding]; other site 458817009919 putative CheW interface [polypeptide binding]; other site 458817009920 ornithine cyclodeaminase; Validated; Region: PRK06141 458817009921 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 458817009922 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 458817009923 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817009924 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 458817009925 DNA binding residues [nucleotide binding] 458817009926 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 458817009927 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 458817009928 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 458817009929 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 458817009930 RNA binding surface [nucleotide binding]; other site 458817009931 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 458817009932 active site 458817009933 uracil binding [chemical binding]; other site 458817009934 maltose O-acetyltransferase; Provisional; Region: PRK10092 458817009935 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 458817009936 active site 458817009937 substrate binding site [chemical binding]; other site 458817009938 trimer interface [polypeptide binding]; other site 458817009939 CoA binding site [chemical binding]; other site 458817009940 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 458817009941 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 458817009942 active site 458817009943 Zn binding site [ion binding]; other site 458817009944 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 458817009945 synthetase active site [active] 458817009946 NTP binding site [chemical binding]; other site 458817009947 metal binding site [ion binding]; metal-binding site 458817009948 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 458817009949 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 458817009950 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 458817009951 putative C-terminal domain interface [polypeptide binding]; other site 458817009952 putative GSH binding site (G-site) [chemical binding]; other site 458817009953 putative dimer interface [polypeptide binding]; other site 458817009954 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 458817009955 dimer interface [polypeptide binding]; other site 458817009956 N-terminal domain interface [polypeptide binding]; other site 458817009957 substrate binding pocket (H-site) [chemical binding]; other site 458817009958 Bacterial PH domain; Region: DUF304; pfam03703 458817009959 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 458817009960 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 458817009961 Beta-lactamase; Region: Beta-lactamase; pfam00144 458817009962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 458817009963 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 458817009964 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 458817009965 malate dehydrogenase; Provisional; Region: PRK13529 458817009966 Malic enzyme, N-terminal domain; Region: malic; pfam00390 458817009967 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 458817009968 NAD(P) binding site [chemical binding]; other site 458817009969 Protein of unknown function DUF262; Region: DUF262; pfam03235 458817009970 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 458817009971 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 458817009972 thiosulfate reductase PhsA; Provisional; Region: PRK15488 458817009973 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 458817009974 putative [Fe4-S4] binding site [ion binding]; other site 458817009975 putative molybdopterin cofactor binding site [chemical binding]; other site 458817009976 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 458817009977 putative molybdopterin cofactor binding site; other site 458817009978 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 458817009979 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 458817009980 active site 458817009981 Tetratricopeptide repeat; Region: TPR_12; pfam13424 458817009982 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817009983 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817009984 metal binding site [ion binding]; metal-binding site 458817009985 active site 458817009986 I-site; other site 458817009987 epoxyqueuosine reductase; Region: TIGR00276 458817009988 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 458817009989 Dodecin; Region: Dodecin; pfam07311 458817009990 Uncharacterized conserved protein [Function unknown]; Region: COG2128 458817009991 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 458817009992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817009993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817009994 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 458817009995 putative effector binding pocket; other site 458817009996 dimerization interface [polypeptide binding]; other site 458817009997 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 458817009998 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 458817009999 catalytic residues [active] 458817010000 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 458817010001 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 458817010002 catalytic residues [active] 458817010003 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 458817010004 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 458817010005 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 458817010006 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 458817010007 DsbD alpha interface [polypeptide binding]; other site 458817010008 catalytic residues [active] 458817010009 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817010010 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817010011 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 458817010012 putative dimerization interface [polypeptide binding]; other site 458817010013 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 458817010014 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 458817010015 active site 458817010016 catalytic triad [active] 458817010017 oxyanion hole [active] 458817010018 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 458817010019 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 458817010020 N-terminal plug; other site 458817010021 ligand-binding site [chemical binding]; other site 458817010022 Predicted flavoprotein [General function prediction only]; Region: COG0431 458817010023 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 458817010024 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817010025 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817010026 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 458817010027 putative effector binding pocket; other site 458817010028 dimerization interface [polypeptide binding]; other site 458817010029 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 458817010030 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 458817010031 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817010032 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 458817010033 substrate binding pocket [chemical binding]; other site 458817010034 membrane-bound complex binding site; other site 458817010035 hinge residues; other site 458817010036 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 458817010037 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 458817010038 RNA binding surface [nucleotide binding]; other site 458817010039 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 458817010040 active site 458817010041 uracil binding [chemical binding]; other site 458817010042 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 458817010043 active site 458817010044 substrate binding pocket [chemical binding]; other site 458817010045 dimer interface [polypeptide binding]; other site 458817010046 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 458817010047 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 458817010048 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 458817010049 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 458817010050 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 458817010051 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 458817010052 Domain of unknown function (DUF1704); Region: DUF1704; pfam08014 458817010053 glutathione synthetase; Provisional; Region: PRK12458 458817010054 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 458817010055 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 458817010056 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817010057 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817010058 metal binding site [ion binding]; metal-binding site 458817010059 active site 458817010060 I-site; other site 458817010061 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 458817010062 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 458817010063 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 458817010064 active site 458817010065 FMN binding site [chemical binding]; other site 458817010066 substrate binding site [chemical binding]; other site 458817010067 3Fe-4S cluster binding site [ion binding]; other site 458817010068 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 458817010069 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 458817010070 PII uridylyl-transferase; Provisional; Region: PRK05007 458817010071 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 458817010072 metal binding triad; other site 458817010073 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 458817010074 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 458817010075 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817010076 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 458817010077 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 458817010078 Beta-Casp domain; Region: Beta-Casp; smart01027 458817010079 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 458817010080 Protein of unknown function (DUF465); Region: DUF465; pfam04325 458817010081 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 458817010082 SPFH domain / Band 7 family; Region: Band_7; pfam01145 458817010083 Leucine rich repeat; Region: LRR_8; pfam13855 458817010084 Leucine rich repeat; Region: LRR_8; pfam13855 458817010085 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 458817010086 Substrate binding site [chemical binding]; other site 458817010087 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 458817010088 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 458817010089 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 458817010090 active site 458817010091 Zn binding site [ion binding]; other site 458817010092 putative S-transferase; Provisional; Region: PRK11752 458817010093 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 458817010094 C-terminal domain interface [polypeptide binding]; other site 458817010095 GSH binding site (G-site) [chemical binding]; other site 458817010096 dimer interface [polypeptide binding]; other site 458817010097 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 458817010098 dimer interface [polypeptide binding]; other site 458817010099 N-terminal domain interface [polypeptide binding]; other site 458817010100 active site 458817010101 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 458817010102 guanine deaminase; Region: guan_deamin; TIGR02967 458817010103 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 458817010104 active site 458817010105 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458817010106 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 458817010107 SpoOM protein; Region: Spo0M; pfam07070 458817010108 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 458817010109 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 458817010110 active site pocket [active] 458817010111 BCCT family transporter; Region: BCCT; pfam02028 458817010112 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 458817010113 Transcriptional regulators [Transcription]; Region: FadR; COG2186 458817010114 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 458817010115 DNA-binding site [nucleotide binding]; DNA binding site 458817010116 FCD domain; Region: FCD; pfam07729 458817010117 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 458817010118 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 458817010119 EamA-like transporter family; Region: EamA; pfam00892 458817010120 EamA-like transporter family; Region: EamA; pfam00892 458817010121 YcaO domain protein; Region: TIGR03549 458817010122 OsmC-like protein; Region: OsmC; pfam02566 458817010123 YcaO-like family; Region: YcaO; pfam02624 458817010124 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 458817010125 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 458817010126 putative N- and C-terminal domain interface [polypeptide binding]; other site 458817010127 putative active site [active] 458817010128 MgATP binding site [chemical binding]; other site 458817010129 catalytic site [active] 458817010130 metal binding site [ion binding]; metal-binding site 458817010131 putative carbohydrate binding site [chemical binding]; other site 458817010132 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 458817010133 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 458817010134 FAD binding domain; Region: FAD_binding_4; pfam01565 458817010135 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 458817010136 Transcription factor e(y)2; Region: EnY2; pfam10163 458817010137 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 458817010138 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 458817010139 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 458817010140 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 458817010141 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 458817010142 Ribosome recycling factor; Region: RRF_GI; pfam12614 458817010143 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 458817010144 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 458817010145 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 458817010146 DNA-binding site [nucleotide binding]; DNA binding site 458817010147 RNA-binding motif; other site 458817010148 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 458817010149 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 458817010150 homodimer interaction site [polypeptide binding]; other site 458817010151 cofactor binding site; other site 458817010152 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817010153 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817010154 metal binding site [ion binding]; metal-binding site 458817010155 active site 458817010156 I-site; other site 458817010157 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 458817010158 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 458817010159 multidrug resistance protein MdtN; Provisional; Region: PRK10476 458817010160 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817010161 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817010162 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 458817010163 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 458817010164 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 458817010165 peptidase T-like protein; Region: PepT-like; TIGR01883 458817010166 metal binding site [ion binding]; metal-binding site 458817010167 putative dimer interface [polypeptide binding]; other site 458817010168 Protein of unknown function (DUF330); Region: DUF330; pfam03886 458817010169 paraquat-inducible protein B; Provisional; Region: PRK10807 458817010170 mce related protein; Region: MCE; pfam02470 458817010171 mce related protein; Region: MCE; pfam02470 458817010172 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 458817010173 Paraquat-inducible protein A; Region: PqiA; pfam04403 458817010174 Paraquat-inducible protein A; Region: PqiA; pfam04403 458817010175 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 458817010176 catalytic motif [active] 458817010177 Zn binding site [ion binding]; other site 458817010178 ZIP Zinc transporter; Region: Zip; pfam02535 458817010179 hypothetical protein; Provisional; Region: PRK10621 458817010180 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 458817010181 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 458817010182 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 458817010183 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 458817010184 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 458817010185 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 458817010186 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 458817010187 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 458817010188 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 458817010189 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 458817010190 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 458817010191 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 458817010192 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 458817010193 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 458817010194 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 458817010195 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 458817010196 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817010197 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817010198 dimer interface [polypeptide binding]; other site 458817010199 putative CheW interface [polypeptide binding]; other site 458817010200 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 458817010201 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 458817010202 active site 458817010203 metal binding site [ion binding]; metal-binding site 458817010204 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 458817010205 PBP superfamily domain; Region: PBP_like_2; pfam12849 458817010206 glycine dehydrogenase; Provisional; Region: PRK05367 458817010207 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 458817010208 tetramer interface [polypeptide binding]; other site 458817010209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817010210 catalytic residue [active] 458817010211 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 458817010212 tetramer interface [polypeptide binding]; other site 458817010213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817010214 catalytic residue [active] 458817010215 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 458817010216 lipoyl attachment site [posttranslational modification]; other site 458817010217 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 458817010218 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 458817010219 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 458817010220 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 458817010221 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 458817010222 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 458817010223 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 458817010224 Cell division protein ZapA; Region: ZapA; pfam05164 458817010225 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 458817010226 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 458817010227 active site 458817010228 catalytic site [active] 458817010229 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 458817010230 active site 458817010231 PEGA domain; Region: PEGA; pfam08308 458817010232 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 458817010233 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 458817010234 Zn binding sites [ion binding]; other site 458817010235 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 458817010236 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 458817010237 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 458817010238 putative switch regulator; other site 458817010239 non-specific DNA interactions [nucleotide binding]; other site 458817010240 DNA binding site [nucleotide binding] 458817010241 sequence specific DNA binding site [nucleotide binding]; other site 458817010242 putative cAMP binding site [chemical binding]; other site 458817010243 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 458817010244 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 458817010245 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 458817010246 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 458817010247 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 458817010248 ligand binding site [chemical binding]; other site 458817010249 active site 458817010250 UGI interface [polypeptide binding]; other site 458817010251 catalytic site [active] 458817010252 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 458817010253 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 458817010254 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 458817010255 DsbD alpha interface [polypeptide binding]; other site 458817010256 catalytic residues [active] 458817010257 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 458817010258 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 458817010259 acyl-activating enzyme (AAE) consensus motif; other site 458817010260 putative AMP binding site [chemical binding]; other site 458817010261 putative active site [active] 458817010262 putative CoA binding site [chemical binding]; other site 458817010263 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 458817010264 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458817010265 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817010266 Walker A/P-loop; other site 458817010267 ATP binding site [chemical binding]; other site 458817010268 Q-loop/lid; other site 458817010269 ABC transporter signature motif; other site 458817010270 Walker B; other site 458817010271 D-loop; other site 458817010272 H-loop/switch region; other site 458817010273 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 458817010274 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 458817010275 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 458817010276 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 458817010277 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 458817010278 N-terminal plug; other site 458817010279 ligand-binding site [chemical binding]; other site 458817010280 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 458817010281 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 458817010282 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 458817010283 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 458817010284 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 458817010285 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 458817010286 putative hemin binding site; other site 458817010287 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 458817010288 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 458817010289 ABC-ATPase subunit interface; other site 458817010290 dimer interface [polypeptide binding]; other site 458817010291 putative PBP binding regions; other site 458817010292 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 458817010293 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 458817010294 Walker A/P-loop; other site 458817010295 ATP binding site [chemical binding]; other site 458817010296 Q-loop/lid; other site 458817010297 ABC transporter signature motif; other site 458817010298 Walker B; other site 458817010299 D-loop; other site 458817010300 H-loop/switch region; other site 458817010301 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817010302 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817010303 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 458817010304 RibD C-terminal domain; Region: RibD_C; cl17279 458817010305 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 458817010306 putative active site [active] 458817010307 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817010308 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817010309 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 458817010310 dimerization interface [polypeptide binding]; other site 458817010311 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 458817010312 Predicted membrane protein [Function unknown]; Region: COG4125 458817010313 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 458817010314 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 458817010315 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 458817010316 FeS/SAM binding site; other site 458817010317 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 458817010318 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 458817010319 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 458817010320 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 458817010321 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 458817010322 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 458817010323 molybdopterin cofactor binding site [chemical binding]; other site 458817010324 substrate binding site [chemical binding]; other site 458817010325 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 458817010326 molybdopterin cofactor binding site; other site 458817010327 chaperone protein TorD; Validated; Region: torD; PRK04976 458817010328 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 458817010329 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 458817010330 dimer interface [polypeptide binding]; other site 458817010331 phosphorylation site [posttranslational modification] 458817010332 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817010333 ATP binding site [chemical binding]; other site 458817010334 Mg2+ binding site [ion binding]; other site 458817010335 G-X-G motif; other site 458817010336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817010337 active site 458817010338 phosphorylation site [posttranslational modification] 458817010339 intermolecular recognition site; other site 458817010340 dimerization interface [polypeptide binding]; other site 458817010341 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 458817010342 putative binding surface; other site 458817010343 active site 458817010344 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 458817010345 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 458817010346 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 458817010347 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817010348 active site 458817010349 phosphorylation site [posttranslational modification] 458817010350 intermolecular recognition site; other site 458817010351 dimerization interface [polypeptide binding]; other site 458817010352 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 458817010353 DNA binding site [nucleotide binding] 458817010354 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 458817010355 Ion transport protein; Region: Ion_trans; pfam00520 458817010356 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 458817010357 Bacterial PH domain; Region: DUF304; pfam03703 458817010358 Predicted membrane protein [Function unknown]; Region: COG3428 458817010359 Bacterial PH domain; Region: DUF304; pfam03703 458817010360 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 458817010361 Bacterial PH domain; Region: DUF304; pfam03703 458817010362 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 458817010363 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 458817010364 Ligand Binding Site [chemical binding]; other site 458817010365 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 458817010366 Ligand Binding Site [chemical binding]; other site 458817010367 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 458817010368 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 458817010369 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 458817010370 NAD(P) binding site [chemical binding]; other site 458817010371 catalytic residues [active] 458817010372 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817010373 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817010374 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 458817010375 HAMP domain; Region: HAMP; pfam00672 458817010376 PAS domain; Region: PAS_8; pfam13188 458817010377 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817010378 ATP binding site [chemical binding]; other site 458817010379 Mg2+ binding site [ion binding]; other site 458817010380 G-X-G motif; other site 458817010381 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 458817010382 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817010383 active site 458817010384 phosphorylation site [posttranslational modification] 458817010385 intermolecular recognition site; other site 458817010386 dimerization interface [polypeptide binding]; other site 458817010387 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817010388 Walker A motif; other site 458817010389 ATP binding site [chemical binding]; other site 458817010390 Walker B motif; other site 458817010391 arginine finger; other site 458817010392 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817010393 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817010394 FtsX-like permease family; Region: FtsX; pfam02687 458817010395 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817010396 FtsX-like permease family; Region: FtsX; pfam02687 458817010397 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458817010398 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 458817010399 Walker A/P-loop; other site 458817010400 ATP binding site [chemical binding]; other site 458817010401 Q-loop/lid; other site 458817010402 ABC transporter signature motif; other site 458817010403 Walker B; other site 458817010404 D-loop; other site 458817010405 H-loop/switch region; other site 458817010406 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817010407 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 458817010408 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817010409 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 458817010410 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 458817010411 trimer interface [polypeptide binding]; other site 458817010412 eyelet of channel; other site 458817010413 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 458817010414 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 458817010415 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 458817010416 [4Fe-4S] binding site [ion binding]; other site 458817010417 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 458817010418 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 458817010419 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 458817010420 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 458817010421 molybdopterin cofactor binding site; other site 458817010422 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 458817010423 4Fe-4S binding domain; Region: Fer4_6; pfam12837 458817010424 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 458817010425 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 458817010426 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 458817010427 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 458817010428 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817010429 Walker A motif; other site 458817010430 ATP binding site [chemical binding]; other site 458817010431 Walker B motif; other site 458817010432 arginine finger; other site 458817010433 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 458817010434 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 458817010435 L-aspartate oxidase; Provisional; Region: PRK06175 458817010436 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 458817010437 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 458817010438 active sites [active] 458817010439 tetramer interface [polypeptide binding]; other site 458817010440 MAPEG family; Region: MAPEG; cl09190 458817010441 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 458817010442 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 458817010443 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 458817010444 cobalamin binding residues [chemical binding]; other site 458817010445 putative BtuC binding residues; other site 458817010446 dimer interface [polypeptide binding]; other site 458817010447 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 458817010448 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 458817010449 homodimer interface [polypeptide binding]; other site 458817010450 Walker A motif; other site 458817010451 ATP binding site [chemical binding]; other site 458817010452 hydroxycobalamin binding site [chemical binding]; other site 458817010453 Walker B motif; other site 458817010454 cobyric acid synthase; Provisional; Region: PRK00784 458817010455 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 458817010456 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 458817010457 catalytic triad [active] 458817010458 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 458817010459 homotrimer interface [polypeptide binding]; other site 458817010460 Walker A motif; other site 458817010461 GTP binding site [chemical binding]; other site 458817010462 Walker B motif; other site 458817010463 cobalamin synthase; Reviewed; Region: cobS; PRK00235 458817010464 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 458817010465 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 458817010466 putative dimer interface [polypeptide binding]; other site 458817010467 active site pocket [active] 458817010468 putative cataytic base [active] 458817010469 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 458817010470 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 458817010471 ABC-ATPase subunit interface; other site 458817010472 dimer interface [polypeptide binding]; other site 458817010473 putative PBP binding regions; other site 458817010474 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 458817010475 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 458817010476 Walker A/P-loop; other site 458817010477 ATP binding site [chemical binding]; other site 458817010478 Q-loop/lid; other site 458817010479 ABC transporter signature motif; other site 458817010480 Walker B; other site 458817010481 D-loop; other site 458817010482 H-loop/switch region; other site 458817010483 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 458817010484 catalytic core [active] 458817010485 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 458817010486 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 458817010487 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 458817010488 substrate binding pocket [chemical binding]; other site 458817010489 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 458817010490 B12 binding site [chemical binding]; other site 458817010491 cobalt ligand [ion binding]; other site 458817010492 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 458817010493 UreD urease accessory protein; Region: UreD; pfam01774 458817010494 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 458817010495 alpha-gamma subunit interface [polypeptide binding]; other site 458817010496 beta-gamma subunit interface [polypeptide binding]; other site 458817010497 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 458817010498 gamma-beta subunit interface [polypeptide binding]; other site 458817010499 alpha-beta subunit interface [polypeptide binding]; other site 458817010500 urease subunit alpha; Reviewed; Region: ureC; PRK13207 458817010501 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 458817010502 subunit interactions [polypeptide binding]; other site 458817010503 active site 458817010504 flap region; other site 458817010505 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 458817010506 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 458817010507 dimer interface [polypeptide binding]; other site 458817010508 catalytic residues [active] 458817010509 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 458817010510 UreF; Region: UreF; pfam01730 458817010511 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 458817010512 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 458817010513 homotrimer interaction site [polypeptide binding]; other site 458817010514 putative active site [active] 458817010515 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 458817010516 homotrimer interaction site [polypeptide binding]; other site 458817010517 putative active site [active] 458817010518 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 458817010519 homotrimer interaction site [polypeptide binding]; other site 458817010520 putative active site [active] 458817010521 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 458817010522 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 458817010523 hypothetical protein; Provisional; Region: PRK11281 458817010524 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 458817010525 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817010526 Protein of unknown function (DUF465); Region: DUF465; pfam04325 458817010527 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 458817010528 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 458817010529 active site 458817010530 purine riboside binding site [chemical binding]; other site 458817010531 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 458817010532 Fibronectin type 3 domain; Region: FN3; smart00060 458817010533 Peptidase M66; Region: Peptidase_M66; pfam10462 458817010534 ToxR activated gene A lipoprotein; Region: TagA; pfam12561 458817010535 ToxR activated gene A lipoprotein; Region: TagA; pfam12561 458817010536 RDD family; Region: RDD; pfam06271 458817010537 E3 ubiquitin-protein ligase SspH2; Provisional; Region: PRK15387 458817010538 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 458817010539 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 458817010540 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 458817010541 active site 458817010542 Zn binding site [ion binding]; other site 458817010543 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 458817010544 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817010545 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 458817010546 substrate binding pocket [chemical binding]; other site 458817010547 membrane-bound complex binding site; other site 458817010548 hinge residues; other site 458817010549 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817010550 dimer interface [polypeptide binding]; other site 458817010551 conserved gate region; other site 458817010552 putative PBP binding loops; other site 458817010553 ABC-ATPase subunit interface; other site 458817010554 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 458817010555 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 458817010556 Walker A/P-loop; other site 458817010557 ATP binding site [chemical binding]; other site 458817010558 Q-loop/lid; other site 458817010559 ABC transporter signature motif; other site 458817010560 Walker B; other site 458817010561 D-loop; other site 458817010562 H-loop/switch region; other site 458817010563 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 458817010564 putative deacylase active site [active] 458817010565 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 458817010566 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 458817010567 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 458817010568 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 458817010569 Nucleoside recognition; Region: Gate; pfam07670 458817010570 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 458817010571 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 458817010572 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 458817010573 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817010574 Domain of unknown function (DUF4092); Region: DUF4092; pfam13322 458817010575 Peptidase M60-like family; Region: M60-like; pfam13402 458817010576 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 458817010577 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 458817010578 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817010579 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 458817010580 Helix-turn-helix domain; Region: HTH_18; pfam12833 458817010581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817010582 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 458817010583 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817010584 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 458817010585 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817010586 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817010587 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817010588 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817010589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817010590 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 458817010591 dimerization interface [polypeptide binding]; other site 458817010592 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 458817010593 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 458817010594 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 458817010595 Predicted permease; Region: DUF318; cl17795 458817010596 Predicted permease; Region: DUF318; cl17795 458817010597 Domain of unknown function; Region: DUF331; pfam03889 458817010598 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 458817010599 DNA-binding site [nucleotide binding]; DNA binding site 458817010600 RNA-binding motif; other site 458817010601 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 458817010602 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 458817010603 catalytic site [active] 458817010604 putative active site [active] 458817010605 putative substrate binding site [chemical binding]; other site 458817010606 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 458817010607 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 458817010608 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 458817010609 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 458817010610 DNA binding site [nucleotide binding] 458817010611 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 458817010612 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 458817010613 catalytic residues [active] 458817010614 hinge region; other site 458817010615 alpha helical domain; other site 458817010616 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458817010617 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 458817010618 Flavodoxin domain; Region: Flavodoxin_5; cl17428 458817010619 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 458817010620 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 458817010621 Imelysin; Region: Peptidase_M75; pfam09375 458817010622 TIGR03899 family protein; Region: TIGR03899 458817010623 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 458817010624 ligand-binding site [chemical binding]; other site 458817010625 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 458817010626 TrkA-C domain; Region: TrkA_C; pfam02080 458817010627 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 458817010628 TrkA-C domain; Region: TrkA_C; pfam02080 458817010629 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 458817010630 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 458817010631 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 458817010632 CysD dimerization site [polypeptide binding]; other site 458817010633 G1 box; other site 458817010634 putative GEF interaction site [polypeptide binding]; other site 458817010635 GTP/Mg2+ binding site [chemical binding]; other site 458817010636 Switch I region; other site 458817010637 G2 box; other site 458817010638 G3 box; other site 458817010639 Switch II region; other site 458817010640 G4 box; other site 458817010641 G5 box; other site 458817010642 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 458817010643 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 458817010644 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 458817010645 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 458817010646 Active Sites [active] 458817010647 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 458817010648 active site 458817010649 SAM binding site [chemical binding]; other site 458817010650 homodimer interface [polypeptide binding]; other site 458817010651 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 458817010652 dimerization interface [polypeptide binding]; other site 458817010653 substrate binding site [chemical binding]; other site 458817010654 active site 458817010655 calcium binding site [ion binding]; other site 458817010656 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 458817010657 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 458817010658 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 458817010659 ATP binding site [chemical binding]; other site 458817010660 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 458817010661 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 458817010662 catalytic triad [active] 458817010663 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 458817010664 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 458817010665 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 458817010666 Active Sites [active] 458817010667 sulfite reductase subunit beta; Provisional; Region: PRK13504 458817010668 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 458817010669 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 458817010670 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 458817010671 Flavodoxin; Region: Flavodoxin_1; pfam00258 458817010672 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 458817010673 FAD binding pocket [chemical binding]; other site 458817010674 FAD binding motif [chemical binding]; other site 458817010675 catalytic residues [active] 458817010676 NAD binding pocket [chemical binding]; other site 458817010677 phosphate binding motif [ion binding]; other site 458817010678 beta-alpha-beta structure motif; other site 458817010679 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 458817010680 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 458817010681 ligand binding site [chemical binding]; other site 458817010682 homodimer interface [polypeptide binding]; other site 458817010683 NAD(P) binding site [chemical binding]; other site 458817010684 trimer interface B [polypeptide binding]; other site 458817010685 trimer interface A [polypeptide binding]; other site 458817010686 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 458817010687 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 458817010688 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 458817010689 MltA-interacting protein MipA; Region: MipA; cl01504 458817010690 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817010691 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 458817010692 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 458817010693 putative ribose interaction site [chemical binding]; other site 458817010694 putative ADP binding site [chemical binding]; other site 458817010695 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 458817010696 active site 458817010697 nucleotide binding site [chemical binding]; other site 458817010698 HIGH motif; other site 458817010699 KMSKS motif; other site 458817010700 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 458817010701 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 458817010702 putative acyl-acceptor binding pocket; other site 458817010703 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 458817010704 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817010705 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 458817010706 DNA binding residues [nucleotide binding] 458817010707 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 458817010708 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 458817010709 GAF domain; Region: GAF; pfam01590 458817010710 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817010711 Walker A motif; other site 458817010712 ATP binding site [chemical binding]; other site 458817010713 Walker B motif; other site 458817010714 arginine finger; other site 458817010715 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 458817010716 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 458817010717 Mg binding site [ion binding]; other site 458817010718 nucleotide binding site [chemical binding]; other site 458817010719 putative protofilament interface [polypeptide binding]; other site 458817010720 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 458817010721 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 458817010722 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817010723 catalytic residue [active] 458817010724 permease DsdX; Provisional; Region: PRK09921 458817010725 gluconate transporter; Region: gntP; TIGR00791 458817010726 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 458817010727 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817010728 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 458817010729 dimerization interface [polypeptide binding]; other site 458817010730 substrate binding pocket [chemical binding]; other site 458817010731 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 458817010732 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 458817010733 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 458817010734 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817010735 ATP binding site [chemical binding]; other site 458817010736 Mg2+ binding site [ion binding]; other site 458817010737 G-X-G motif; other site 458817010738 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 458817010739 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 458817010740 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 458817010741 metal binding triad; other site 458817010742 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 458817010743 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 458817010744 metal binding triad; other site 458817010745 spermidine synthase; Provisional; Region: PRK03612 458817010746 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 458817010747 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 458817010748 PspA/IM30 family; Region: PspA_IM30; pfam04012 458817010749 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 458817010750 Ion transport protein; Region: Ion_trans; pfam00520 458817010751 Ion channel; Region: Ion_trans_2; pfam07885 458817010752 Uncharacterized conserved protein [Function unknown]; Region: COG3025 458817010753 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 458817010754 putative active site [active] 458817010755 putative metal binding residues [ion binding]; other site 458817010756 signature motif; other site 458817010757 putative triphosphate binding site [ion binding]; other site 458817010758 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 458817010759 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 458817010760 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 458817010761 Bacterial SH3 domain homologues; Region: SH3b; smart00287 458817010762 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 458817010763 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 458817010764 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 458817010765 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 458817010766 Glutamate binding site [chemical binding]; other site 458817010767 NAD binding site [chemical binding]; other site 458817010768 catalytic residues [active] 458817010769 Cache domain; Region: Cache_1; pfam02743 458817010770 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 458817010771 dimerization interface [polypeptide binding]; other site 458817010772 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817010773 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817010774 dimer interface [polypeptide binding]; other site 458817010775 putative CheW interface [polypeptide binding]; other site 458817010776 Cache domain; Region: Cache_1; pfam02743 458817010777 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 458817010778 dimerization interface [polypeptide binding]; other site 458817010779 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817010780 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817010781 dimer interface [polypeptide binding]; other site 458817010782 putative CheW interface [polypeptide binding]; other site 458817010783 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 458817010784 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817010785 Walker A/P-loop; other site 458817010786 ATP binding site [chemical binding]; other site 458817010787 Q-loop/lid; other site 458817010788 ABC transporter signature motif; other site 458817010789 Walker B; other site 458817010790 D-loop; other site 458817010791 H-loop/switch region; other site 458817010792 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 458817010793 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458817010794 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 458817010795 Walker A/P-loop; other site 458817010796 ATP binding site [chemical binding]; other site 458817010797 Q-loop/lid; other site 458817010798 ABC transporter signature motif; other site 458817010799 Walker B; other site 458817010800 D-loop; other site 458817010801 H-loop/switch region; other site 458817010802 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 458817010803 helicase 45; Provisional; Region: PTZ00424 458817010804 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 458817010805 ATP binding site [chemical binding]; other site 458817010806 Mg++ binding site [ion binding]; other site 458817010807 motif III; other site 458817010808 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 458817010809 nucleotide binding region [chemical binding]; other site 458817010810 ATP-binding site [chemical binding]; other site 458817010811 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 458817010812 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 458817010813 ATP binding site [chemical binding]; other site 458817010814 Mg++ binding site [ion binding]; other site 458817010815 motif III; other site 458817010816 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 458817010817 nucleotide binding region [chemical binding]; other site 458817010818 ATP-binding site [chemical binding]; other site 458817010819 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 458817010820 putative RNA binding site [nucleotide binding]; other site 458817010821 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 458817010822 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 458817010823 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 458817010824 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817010825 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817010826 ABC transporter; Region: ABC_tran_2; pfam12848 458817010827 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 458817010828 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 458817010829 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 458817010830 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 458817010831 putative hydrolase; Provisional; Region: PRK10985 458817010832 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 458817010833 phosphoribulokinase; Provisional; Region: PRK15453 458817010834 active site 458817010835 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 458817010836 Sel1-like repeats; Region: SEL1; smart00671 458817010837 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 458817010838 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 458817010839 ligand binding site [chemical binding]; other site 458817010840 flexible hinge region; other site 458817010841 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 458817010842 putative switch regulator; other site 458817010843 non-specific DNA interactions [nucleotide binding]; other site 458817010844 DNA binding site [nucleotide binding] 458817010845 sequence specific DNA binding site [nucleotide binding]; other site 458817010846 putative cAMP binding site [chemical binding]; other site 458817010847 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 458817010848 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817010849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817010850 active site 458817010851 phosphorylation site [posttranslational modification] 458817010852 intermolecular recognition site; other site 458817010853 dimerization interface [polypeptide binding]; other site 458817010854 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 458817010855 DNA binding site [nucleotide binding] 458817010856 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817010857 HAMP domain; Region: HAMP; pfam00672 458817010858 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 458817010859 dimer interface [polypeptide binding]; other site 458817010860 phosphorylation site [posttranslational modification] 458817010861 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817010862 ATP binding site [chemical binding]; other site 458817010863 Mg2+ binding site [ion binding]; other site 458817010864 G-X-G motif; other site 458817010865 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 458817010866 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 458817010867 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 458817010868 NAD(P) binding site [chemical binding]; other site 458817010869 catalytic residues [active] 458817010870 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 458817010871 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 458817010872 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 458817010873 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 458817010874 inhibitor-cofactor binding pocket; inhibition site 458817010875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817010876 catalytic residue [active] 458817010877 HDOD domain; Region: HDOD; pfam08668 458817010878 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 458817010879 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817010880 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 458817010881 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 458817010882 glutamine binding [chemical binding]; other site 458817010883 catalytic triad [active] 458817010884 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 458817010885 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 458817010886 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 458817010887 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 458817010888 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 458817010889 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 458817010890 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 458817010891 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 458817010892 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 458817010893 Walker A/P-loop; other site 458817010894 ATP binding site [chemical binding]; other site 458817010895 Q-loop/lid; other site 458817010896 ABC transporter signature motif; other site 458817010897 Walker B; other site 458817010898 D-loop; other site 458817010899 H-loop/switch region; other site 458817010900 NTPase; Region: NTPase_1; pfam03266 458817010901 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 458817010902 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 458817010903 ABC-ATPase subunit interface; other site 458817010904 dimer interface [polypeptide binding]; other site 458817010905 putative PBP binding regions; other site 458817010906 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 458817010907 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 458817010908 intersubunit interface [polypeptide binding]; other site 458817010909 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 458817010910 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 458817010911 N-terminal plug; other site 458817010912 ligand-binding site [chemical binding]; other site 458817010913 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 458817010914 stringent starvation protein A; Provisional; Region: sspA; PRK09481 458817010915 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 458817010916 C-terminal domain interface [polypeptide binding]; other site 458817010917 putative GSH binding site (G-site) [chemical binding]; other site 458817010918 dimer interface [polypeptide binding]; other site 458817010919 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 458817010920 dimer interface [polypeptide binding]; other site 458817010921 N-terminal domain interface [polypeptide binding]; other site 458817010922 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 458817010923 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 458817010924 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 458817010925 Qi binding site; other site 458817010926 intrachain domain interface; other site 458817010927 interchain domain interface [polypeptide binding]; other site 458817010928 heme bH binding site [chemical binding]; other site 458817010929 heme bL binding site [chemical binding]; other site 458817010930 Qo binding site; other site 458817010931 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 458817010932 interchain domain interface [polypeptide binding]; other site 458817010933 intrachain domain interface; other site 458817010934 Qi binding site; other site 458817010935 Qo binding site; other site 458817010936 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 458817010937 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 458817010938 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 458817010939 [2Fe-2S] cluster binding site [ion binding]; other site 458817010940 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 458817010941 FtsH protease regulator HflC; Provisional; Region: PRK11029 458817010942 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 458817010943 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 458817010944 HflK protein; Region: hflK; TIGR01933 458817010945 GTPase HflX; Provisional; Region: PRK11058 458817010946 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 458817010947 HflX GTPase family; Region: HflX; cd01878 458817010948 G1 box; other site 458817010949 GTP/Mg2+ binding site [chemical binding]; other site 458817010950 Switch I region; other site 458817010951 G2 box; other site 458817010952 G3 box; other site 458817010953 Switch II region; other site 458817010954 G4 box; other site 458817010955 G5 box; other site 458817010956 bacterial Hfq-like; Region: Hfq; cd01716 458817010957 hexamer interface [polypeptide binding]; other site 458817010958 Sm1 motif; other site 458817010959 RNA binding site [nucleotide binding]; other site 458817010960 Sm2 motif; other site 458817010961 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 458817010962 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; cd02019 458817010963 active site 458817010964 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 458817010965 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817010966 ATP binding site [chemical binding]; other site 458817010967 Mg2+ binding site [ion binding]; other site 458817010968 G-X-G motif; other site 458817010969 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 458817010970 ATP binding site [chemical binding]; other site 458817010971 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 458817010972 AMIN domain; Region: AMIN; pfam11741 458817010973 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 458817010974 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 458817010975 active site 458817010976 metal binding site [ion binding]; metal-binding site 458817010977 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 458817010978 Uncharacterized conserved protein [Function unknown]; Region: COG0062 458817010979 putative carbohydrate kinase; Provisional; Region: PRK10565 458817010980 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 458817010981 putative substrate binding site [chemical binding]; other site 458817010982 putative ATP binding site [chemical binding]; other site 458817010983 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 458817010984 dinuclear metal binding motif [ion binding]; other site 458817010985 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 458817010986 catalytic site [active] 458817010987 putative active site [active] 458817010988 putative substrate binding site [chemical binding]; other site 458817010989 dimer interface [polypeptide binding]; other site 458817010990 GTPase RsgA; Reviewed; Region: PRK12288 458817010991 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 458817010992 RNA binding site [nucleotide binding]; other site 458817010993 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 458817010994 GTPase/Zn-binding domain interface [polypeptide binding]; other site 458817010995 GTP/Mg2+ binding site [chemical binding]; other site 458817010996 G4 box; other site 458817010997 G5 box; other site 458817010998 G1 box; other site 458817010999 Switch I region; other site 458817011000 G2 box; other site 458817011001 G3 box; other site 458817011002 Switch II region; other site 458817011003 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 458817011004 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 458817011005 putative mechanosensitive channel protein; Provisional; Region: PRK10929 458817011006 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 458817011007 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817011008 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 458817011009 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 458817011010 active site 458817011011 catalytic site [active] 458817011012 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 458817011013 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 458817011014 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 458817011015 NAD binding site [chemical binding]; other site 458817011016 ligand binding site [chemical binding]; other site 458817011017 catalytic site [active] 458817011018 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 458817011019 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 458817011020 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 458817011021 CAP-like domain; other site 458817011022 active site 458817011023 primary dimer interface [polypeptide binding]; other site 458817011024 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 458817011025 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 458817011026 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817011027 ATP binding site [chemical binding]; other site 458817011028 Mg2+ binding site [ion binding]; other site 458817011029 G-X-G motif; other site 458817011030 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 458817011031 anchoring element; other site 458817011032 dimer interface [polypeptide binding]; other site 458817011033 ATP binding site [chemical binding]; other site 458817011034 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 458817011035 active site 458817011036 metal binding site [ion binding]; metal-binding site 458817011037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 458817011038 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 458817011039 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 458817011040 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 458817011041 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 458817011042 active site 458817011043 metal binding site [ion binding]; metal-binding site 458817011044 hexamer interface [polypeptide binding]; other site 458817011045 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 458817011046 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 458817011047 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 458817011048 dimer interface [polypeptide binding]; other site 458817011049 ADP-ribose binding site [chemical binding]; other site 458817011050 active site 458817011051 nudix motif; other site 458817011052 metal binding site [ion binding]; metal-binding site 458817011053 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 458817011054 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 458817011055 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 458817011056 Protein of unknown function (DUF461); Region: DUF461; pfam04314 458817011057 enoyl-CoA hydratase; Provisional; Region: PRK06688 458817011058 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 458817011059 substrate binding site [chemical binding]; other site 458817011060 oxyanion hole (OAH) forming residues; other site 458817011061 trimer interface [polypeptide binding]; other site 458817011062 PspC domain; Region: PspC; pfam04024 458817011063 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 458817011064 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 458817011065 FMN binding site [chemical binding]; other site 458817011066 active site 458817011067 catalytic residues [active] 458817011068 substrate binding site [chemical binding]; other site 458817011069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817011070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817011071 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 458817011072 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817011073 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 458817011074 dimerization interface [polypeptide binding]; other site 458817011075 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 458817011076 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 458817011077 heme-binding residues [chemical binding]; other site 458817011078 Surface antigen; Region: Bac_surface_Ag; pfam01103 458817011079 alanine racemase; Reviewed; Region: alr; PRK00053 458817011080 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 458817011081 active site 458817011082 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458817011083 substrate binding site [chemical binding]; other site 458817011084 catalytic residues [active] 458817011085 dimer interface [polypeptide binding]; other site 458817011086 replicative DNA helicase; Provisional; Region: PRK08840 458817011087 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 458817011088 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 458817011089 Walker A motif; other site 458817011090 ATP binding site [chemical binding]; other site 458817011091 Walker B motif; other site 458817011092 DNA binding loops [nucleotide binding] 458817011093 Peptidase S46; Region: Peptidase_S46; pfam10459 458817011094 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 458817011095 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 458817011096 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 458817011097 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 458817011098 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 458817011099 primosomal replication protein N; Provisional; Region: PRK02801 458817011100 generic binding surface II; other site 458817011101 generic binding surface I; other site 458817011102 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 458817011103 Protein of unknown function, DUF481; Region: DUF481; pfam04338 458817011104 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 458817011105 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 458817011106 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 458817011107 exoribonuclease R; Provisional; Region: PRK11642 458817011108 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 458817011109 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 458817011110 RNB domain; Region: RNB; pfam00773 458817011111 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 458817011112 RNA binding site [nucleotide binding]; other site 458817011113 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 458817011114 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 458817011115 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 458817011116 GDP-binding site [chemical binding]; other site 458817011117 ACT binding site; other site 458817011118 IMP binding site; other site 458817011119 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 458817011120 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 458817011121 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 458817011122 23S rRNA interface [nucleotide binding]; other site 458817011123 L3 interface [polypeptide binding]; other site 458817011124 Predicted ATPase [General function prediction only]; Region: COG1485 458817011125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 458817011126 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 458817011127 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 458817011128 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 458817011129 protein binding site [polypeptide binding]; other site 458817011130 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 458817011131 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 458817011132 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 458817011133 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 458817011134 protein binding site [polypeptide binding]; other site 458817011135 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817011136 Response regulator receiver domain; Region: Response_reg; pfam00072 458817011137 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817011138 active site 458817011139 phosphorylation site [posttranslational modification] 458817011140 intermolecular recognition site; other site 458817011141 dimerization interface [polypeptide binding]; other site 458817011142 Helix-turn-helix domain; Region: HTH_20; pfam12840 458817011143 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 458817011144 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 458817011145 dimer interface [polypeptide binding]; other site 458817011146 phosphorylation site [posttranslational modification] 458817011147 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817011148 ATP binding site [chemical binding]; other site 458817011149 Mg2+ binding site [ion binding]; other site 458817011150 G-X-G motif; other site 458817011151 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 458817011152 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 458817011153 hinge; other site 458817011154 active site 458817011155 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 458817011156 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 458817011157 anti sigma factor interaction site; other site 458817011158 regulatory phosphorylation site [posttranslational modification]; other site 458817011159 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 458817011160 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 458817011161 mce related protein; Region: MCE; pfam02470 458817011162 conserved hypothetical integral membrane protein; Region: TIGR00056 458817011163 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 458817011164 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 458817011165 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 458817011166 Walker A/P-loop; other site 458817011167 ATP binding site [chemical binding]; other site 458817011168 Q-loop/lid; other site 458817011169 ABC transporter signature motif; other site 458817011170 Walker B; other site 458817011171 D-loop; other site 458817011172 H-loop/switch region; other site 458817011173 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 458817011174 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 458817011175 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 458817011176 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 458817011177 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 458817011178 putative active site [active] 458817011179 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 458817011180 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 458817011181 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 458817011182 active site 458817011183 motif I; other site 458817011184 motif II; other site 458817011185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 458817011186 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 458817011187 OstA-like protein; Region: OstA; cl00844 458817011188 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 458817011189 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 458817011190 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 458817011191 Walker A/P-loop; other site 458817011192 ATP binding site [chemical binding]; other site 458817011193 Q-loop/lid; other site 458817011194 ABC transporter signature motif; other site 458817011195 Walker B; other site 458817011196 D-loop; other site 458817011197 H-loop/switch region; other site 458817011198 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 458817011199 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 458817011200 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 458817011201 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 458817011202 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 458817011203 30S subunit binding site; other site 458817011204 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 458817011205 active site 458817011206 phosphorylation site [posttranslational modification] 458817011207 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 458817011208 AAA domain; Region: AAA_18; pfam13238 458817011209 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 458817011210 dimerization domain swap beta strand [polypeptide binding]; other site 458817011211 regulatory protein interface [polypeptide binding]; other site 458817011212 active site 458817011213 regulatory phosphorylation site [posttranslational modification]; other site 458817011214 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 458817011215 MgtE intracellular N domain; Region: MgtE_N; smart00924 458817011216 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 458817011217 Divalent cation transporter; Region: MgtE; cl00786 458817011218 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 458817011219 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 458817011220 putative outer membrane lipoprotein; Provisional; Region: PRK10510 458817011221 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817011222 ligand binding site [chemical binding]; other site 458817011223 Family description; Region: VCBS; pfam13517 458817011224 Family description; Region: VCBS; pfam13517 458817011225 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 458817011226 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 458817011227 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 458817011228 putative RNA binding site [nucleotide binding]; other site 458817011229 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 458817011230 S-adenosylmethionine binding site [chemical binding]; other site 458817011231 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817011232 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817011233 putative substrate translocation pore; other site 458817011234 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 458817011235 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 458817011236 S-adenosylmethionine binding site [chemical binding]; other site 458817011237 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 458817011238 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 458817011239 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 458817011240 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 458817011241 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817011242 Walker A/P-loop; other site 458817011243 ATP binding site [chemical binding]; other site 458817011244 Q-loop/lid; other site 458817011245 ABC transporter signature motif; other site 458817011246 Walker B; other site 458817011247 D-loop; other site 458817011248 H-loop/switch region; other site 458817011249 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 458817011250 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817011251 Walker A/P-loop; other site 458817011252 ATP binding site [chemical binding]; other site 458817011253 Q-loop/lid; other site 458817011254 ABC transporter signature motif; other site 458817011255 Walker B; other site 458817011256 D-loop; other site 458817011257 H-loop/switch region; other site 458817011258 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 458817011259 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817011260 putative PBP binding loops; other site 458817011261 ABC-ATPase subunit interface; other site 458817011262 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 458817011263 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817011264 dimer interface [polypeptide binding]; other site 458817011265 conserved gate region; other site 458817011266 putative PBP binding loops; other site 458817011267 ABC-ATPase subunit interface; other site 458817011268 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 458817011269 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_19; cd08518 458817011270 nickel responsive regulator; Provisional; Region: PRK00630 458817011271 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 458817011272 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 458817011273 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817011274 Helix-turn-helix domain; Region: HTH_18; pfam12833 458817011275 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 458817011276 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 458817011277 substrate binding site [chemical binding]; other site 458817011278 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 458817011279 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 458817011280 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 458817011281 catalytic residue [active] 458817011282 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817011283 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011284 metal binding site [ion binding]; metal-binding site 458817011285 active site 458817011286 I-site; other site 458817011287 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 458817011288 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817011289 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 458817011290 substrate binding pocket [chemical binding]; other site 458817011291 membrane-bound complex binding site; other site 458817011292 hinge residues; other site 458817011293 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 458817011294 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 458817011295 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 458817011296 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817011297 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 458817011298 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 458817011299 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 458817011300 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 458817011301 iron binding site [ion binding]; other site 458817011302 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 458817011303 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 458817011304 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 458817011305 Helix-turn-helix domain; Region: HTH_18; pfam12833 458817011306 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 458817011307 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 458817011308 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 458817011309 dimer interface [polypeptide binding]; other site 458817011310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817011311 catalytic residue [active] 458817011312 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 458817011313 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 458817011314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817011315 homodimer interface [polypeptide binding]; other site 458817011316 catalytic residue [active] 458817011317 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 458817011318 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 458817011319 putative active site [active] 458817011320 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 458817011321 aromatic chitin/cellulose binding site residues [chemical binding]; other site 458817011322 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 458817011323 multidrug resistance protein MdtN; Provisional; Region: PRK10476 458817011324 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817011325 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817011326 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 458817011327 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 458817011328 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 458817011329 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 458817011330 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]; Region: COG2524 458817011331 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 458817011332 Transporter associated domain; Region: CorC_HlyC; smart01091 458817011333 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 458817011334 Ligand Binding Site [chemical binding]; other site 458817011335 Surface antigen; Region: Bac_surface_Ag; pfam01103 458817011336 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 458817011337 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 458817011338 substrate binding pocket [chemical binding]; other site 458817011339 membrane-bound complex binding site; other site 458817011340 hinge residues; other site 458817011341 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 458817011342 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 458817011343 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 458817011344 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817011345 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817011346 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 458817011347 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817011348 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 458817011349 ACT domain; Region: ACT_6; pfam13740 458817011350 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 458817011351 BCCT family transporter; Region: BCCT; pfam02028 458817011352 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 458817011353 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 458817011354 active site 458817011355 putative substrate binding pocket [chemical binding]; other site 458817011356 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 458817011357 Domain of unknown function DUF21; Region: DUF21; pfam01595 458817011358 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 458817011359 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 458817011360 Transporter associated domain; Region: CorC_HlyC; smart01091 458817011361 2',3'-cyclic-nucleotide 2'-phosphodiesterase; Region: CycNucDiestase; TIGR01390 458817011362 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 458817011363 active site 458817011364 metal binding site [ion binding]; metal-binding site 458817011365 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 458817011366 PAS fold; Region: PAS_4; pfam08448 458817011367 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817011368 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011369 metal binding site [ion binding]; metal-binding site 458817011370 active site 458817011371 I-site; other site 458817011372 chaperone protein DnaJ; Provisional; Region: PRK10767 458817011373 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 458817011374 HSP70 interaction site [polypeptide binding]; other site 458817011375 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 458817011376 substrate binding site [polypeptide binding]; other site 458817011377 dimer interface [polypeptide binding]; other site 458817011378 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 458817011379 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 458817011380 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 458817011381 active site 458817011382 DNA binding site [nucleotide binding] 458817011383 Int/Topo IB signature motif; other site 458817011384 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 458817011385 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 458817011386 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 458817011387 catalytic residues [active] 458817011388 catalytic nucleophile [active] 458817011389 Presynaptic Site I dimer interface [polypeptide binding]; other site 458817011390 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 458817011391 Synaptic Flat tetramer interface [polypeptide binding]; other site 458817011392 Synaptic Site I dimer interface [polypeptide binding]; other site 458817011393 DNA binding site [nucleotide binding] 458817011394 Helix-turn-helix domain; Region: HTH_38; pfam13936 458817011395 DNA-binding interface [nucleotide binding]; DNA binding site 458817011396 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 458817011397 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 458817011398 active site 458817011399 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 458817011400 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 458817011401 ring oligomerisation interface [polypeptide binding]; other site 458817011402 ATP/Mg binding site [chemical binding]; other site 458817011403 stacking interactions; other site 458817011404 hinge regions; other site 458817011405 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 458817011406 oligomerisation interface [polypeptide binding]; other site 458817011407 mobile loop; other site 458817011408 roof hairpin; other site 458817011409 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 458817011410 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 458817011411 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 458817011412 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817011413 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 458817011414 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 458817011415 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817011416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817011417 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 458817011418 putative effector binding pocket; other site 458817011419 dimerization interface [polypeptide binding]; other site 458817011420 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817011421 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817011422 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 458817011423 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 458817011424 active site 458817011425 Cache domain; Region: Cache_1; pfam02743 458817011426 PAS fold; Region: PAS_4; pfam08448 458817011427 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 458817011428 putative active site [active] 458817011429 heme pocket [chemical binding]; other site 458817011430 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 458817011431 PAS fold; Region: PAS_3; pfam08447 458817011432 putative active site [active] 458817011433 heme pocket [chemical binding]; other site 458817011434 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 458817011435 dimer interface [polypeptide binding]; other site 458817011436 phosphorylation site [posttranslational modification] 458817011437 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817011438 ATP binding site [chemical binding]; other site 458817011439 Mg2+ binding site [ion binding]; other site 458817011440 G-X-G motif; other site 458817011441 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817011442 Response regulator receiver domain; Region: Response_reg; pfam00072 458817011443 active site 458817011444 phosphorylation site [posttranslational modification] 458817011445 intermolecular recognition site; other site 458817011446 dimerization interface [polypeptide binding]; other site 458817011447 Response regulator receiver domain; Region: Response_reg; pfam00072 458817011448 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817011449 active site 458817011450 phosphorylation site [posttranslational modification] 458817011451 intermolecular recognition site; other site 458817011452 dimerization interface [polypeptide binding]; other site 458817011453 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 458817011454 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 458817011455 putative active site [active] 458817011456 PhoH-like protein; Region: PhoH; pfam02562 458817011457 ATP-dependent helicase HepA; Validated; Region: PRK04914 458817011458 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 458817011459 ATP binding site [chemical binding]; other site 458817011460 putative Mg++ binding site [ion binding]; other site 458817011461 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 458817011462 nucleotide binding region [chemical binding]; other site 458817011463 ATP-binding site [chemical binding]; other site 458817011464 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 458817011465 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 458817011466 enoyl-CoA hydratase; Provisional; Region: PRK07509 458817011467 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 458817011468 substrate binding site [chemical binding]; other site 458817011469 oxyanion hole (OAH) forming residues; other site 458817011470 trimer interface [polypeptide binding]; other site 458817011471 Response regulator receiver domain; Region: Response_reg; pfam00072 458817011472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817011473 active site 458817011474 phosphorylation site [posttranslational modification] 458817011475 intermolecular recognition site; other site 458817011476 dimerization interface [polypeptide binding]; other site 458817011477 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 458817011478 PAS fold; Region: PAS; pfam00989 458817011479 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817011480 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011481 metal binding site [ion binding]; metal-binding site 458817011482 active site 458817011483 I-site; other site 458817011484 RNase E inhibitor protein; Provisional; Region: PRK11191 458817011485 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 458817011486 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 458817011487 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 458817011488 putative acyl-acceptor binding pocket; other site 458817011489 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 458817011490 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 458817011491 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 458817011492 putative ligand binding site [chemical binding]; other site 458817011493 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 458817011494 Mechanosensitive ion channel; Region: MS_channel; pfam00924 458817011495 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 458817011496 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 458817011497 Potassium binding sites [ion binding]; other site 458817011498 Cesium cation binding sites [ion binding]; other site 458817011499 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 458817011500 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 458817011501 active site 2 [active] 458817011502 active site 1 [active] 458817011503 TraB family; Region: TraB; pfam01963 458817011504 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 458817011505 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 458817011506 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 458817011507 phosphorylation site [posttranslational modification] 458817011508 intermolecular recognition site; other site 458817011509 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 458817011510 IHF dimer interface [polypeptide binding]; other site 458817011511 IHF - DNA interface [nucleotide binding]; other site 458817011512 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 458817011513 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 458817011514 amino acid carrier protein; Region: agcS; TIGR00835 458817011515 Major Facilitator Superfamily; Region: MFS_1; pfam07690 458817011516 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 458817011517 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 458817011518 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 458817011519 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 458817011520 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 458817011521 arsenical-resistance protein; Region: acr3; TIGR00832 458817011522 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 458817011523 dimerization interface [polypeptide binding]; other site 458817011524 putative DNA binding site [nucleotide binding]; other site 458817011525 putative Zn2+ binding site [ion binding]; other site 458817011526 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 458817011527 peptidase PmbA; Provisional; Region: PRK11040 458817011528 hypothetical protein; Provisional; Region: PRK05255 458817011529 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 458817011530 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 458817011531 ABC-2 type transporter; Region: ABC2_membrane; cl17235 458817011532 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 458817011533 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 458817011534 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 458817011535 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 458817011536 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817011537 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817011538 Outer membrane efflux protein; Region: OEP; pfam02321 458817011539 Outer membrane efflux protein; Region: OEP; pfam02321 458817011540 protease TldD; Provisional; Region: tldD; PRK10735 458817011541 Predicted amidohydrolase [General function prediction only]; Region: COG0388 458817011542 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 458817011543 putative active site [active] 458817011544 catalytic triad [active] 458817011545 dimer interface [polypeptide binding]; other site 458817011546 TIGR02099 family protein; Region: TIGR02099 458817011547 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 458817011548 ribonuclease G; Provisional; Region: PRK11712 458817011549 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 458817011550 homodimer interface [polypeptide binding]; other site 458817011551 oligonucleotide binding site [chemical binding]; other site 458817011552 Maf-like protein; Region: Maf; pfam02545 458817011553 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 458817011554 active site 458817011555 dimer interface [polypeptide binding]; other site 458817011556 rod shape-determining protein MreD; Region: MreD; cl01087 458817011557 rod shape-determining protein MreC; Provisional; Region: PRK13922 458817011558 rod shape-determining protein MreC; Region: MreC; pfam04085 458817011559 rod shape-determining protein MreB; Provisional; Region: PRK13927 458817011560 MreB and similar proteins; Region: MreB_like; cd10225 458817011561 nucleotide binding site [chemical binding]; other site 458817011562 Mg binding site [ion binding]; other site 458817011563 putative protofilament interaction site [polypeptide binding]; other site 458817011564 RodZ interaction site [polypeptide binding]; other site 458817011565 PA14 domain; Region: PA14; cl08459 458817011566 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 458817011567 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 458817011568 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 458817011569 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 458817011570 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 458817011571 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 458817011572 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 458817011573 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 458817011574 Walker A motif; other site 458817011575 ATP binding site [chemical binding]; other site 458817011576 Walker B motif; other site 458817011577 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 458817011578 TPR motif; other site 458817011579 binding surface 458817011580 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 458817011581 binding surface 458817011582 TPR motif; other site 458817011583 Tetratricopeptide repeat; Region: TPR_16; pfam13432 458817011584 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 458817011585 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817011586 Walker A motif; other site 458817011587 ATP binding site [chemical binding]; other site 458817011588 Walker B motif; other site 458817011589 arginine finger; other site 458817011590 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 458817011591 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 458817011592 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 458817011593 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 458817011594 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 458817011595 regulatory protein CsrD; Provisional; Region: PRK11059 458817011596 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011597 metal binding site [ion binding]; metal-binding site 458817011598 active site 458817011599 I-site; other site 458817011600 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 458817011601 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 458817011602 Malic enzyme, N-terminal domain; Region: malic; pfam00390 458817011603 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 458817011604 putative NAD(P) binding site [chemical binding]; other site 458817011605 Staphylococcal nuclease homologues; Region: SNc; smart00318 458817011606 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 458817011607 Catalytic site; other site 458817011608 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 458817011609 FimV N-terminal domain; Region: FimV_core; TIGR03505 458817011610 primosome assembly protein PriA; Validated; Region: PRK05580 458817011611 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 458817011612 ATP binding site [chemical binding]; other site 458817011613 putative Mg++ binding site [ion binding]; other site 458817011614 helicase superfamily c-terminal domain; Region: HELICc; smart00490 458817011615 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 458817011616 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 458817011617 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 458817011618 active site 458817011619 HIGH motif; other site 458817011620 KMSK motif region; other site 458817011621 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 458817011622 tRNA binding surface [nucleotide binding]; other site 458817011623 anticodon binding site; other site 458817011624 Sporulation related domain; Region: SPOR; pfam05036 458817011625 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 458817011626 active site 458817011627 HslU subunit interaction site [polypeptide binding]; other site 458817011628 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 458817011629 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817011630 Walker A motif; other site 458817011631 ATP binding site [chemical binding]; other site 458817011632 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 458817011633 Walker B motif; other site 458817011634 arginine finger; other site 458817011635 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 458817011636 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 458817011637 purine nucleoside phosphorylase; Provisional; Region: PRK13374 458817011638 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 458817011639 putative transporter; Provisional; Region: PRK03699 458817011640 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 458817011641 putative substrate translocation pore; other site 458817011642 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 458817011643 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 458817011644 ligand binding site [chemical binding]; other site 458817011645 flexible hinge region; other site 458817011646 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 458817011647 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 458817011648 catalytic triad [active] 458817011649 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 458817011650 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 458817011651 putative active site [active] 458817011652 metal binding site [ion binding]; metal-binding site 458817011653 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 458817011654 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 458817011655 NAD(P) binding site [chemical binding]; other site 458817011656 catalytic residues [active] 458817011657 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 458817011658 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 458817011659 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 458817011660 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 458817011661 putative active site [active] 458817011662 putative metal binding site [ion binding]; other site 458817011663 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 458817011664 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 458817011665 S-adenosylmethionine binding site [chemical binding]; other site 458817011666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 458817011667 SCP-2 sterol transfer family; Region: SCP2; pfam02036 458817011668 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 458817011669 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 458817011670 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 458817011671 sec-independent translocase; Provisional; Region: PRK01770 458817011672 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 458817011673 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 458817011674 active site 458817011675 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 458817011676 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 458817011677 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817011678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011679 metal binding site [ion binding]; metal-binding site 458817011680 active site 458817011681 I-site; other site 458817011682 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 458817011683 dimer interface [polypeptide binding]; other site 458817011684 allosteric magnesium binding site [ion binding]; other site 458817011685 active site 458817011686 aspartate-rich active site metal binding site; other site 458817011687 Schiff base residues; other site 458817011688 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 458817011689 catalytic residues [active] 458817011690 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 458817011691 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 458817011692 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 458817011693 exopolyphosphatase; Region: exo_poly_only; TIGR03706 458817011694 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 458817011695 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 458817011696 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 458817011697 ATP binding site [chemical binding]; other site 458817011698 Mg++ binding site [ion binding]; other site 458817011699 motif III; other site 458817011700 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 458817011701 nucleotide binding region [chemical binding]; other site 458817011702 ATP-binding site [chemical binding]; other site 458817011703 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 458817011704 catalytic residues [active] 458817011705 transcription termination factor Rho; Provisional; Region: rho; PRK09376 458817011706 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 458817011707 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 458817011708 RNA binding site [nucleotide binding]; other site 458817011709 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 458817011710 multimer interface [polypeptide binding]; other site 458817011711 Walker A motif; other site 458817011712 ATP binding site [chemical binding]; other site 458817011713 Walker B motif; other site 458817011714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817011715 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817011716 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 458817011717 putative effector binding pocket; other site 458817011718 dimerization interface [polypeptide binding]; other site 458817011719 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 458817011720 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 458817011721 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 458817011722 L-aspartate oxidase; Provisional; Region: PRK06175 458817011723 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 458817011724 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 458817011725 Iron-sulfur protein interface; other site 458817011726 proximal heme binding site [chemical binding]; other site 458817011727 distal heme binding site [chemical binding]; other site 458817011728 dimer interface [polypeptide binding]; other site 458817011729 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 458817011730 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 458817011731 Iron-sulfur protein interface; other site 458817011732 proximal heme binding site [chemical binding]; other site 458817011733 distal heme binding site [chemical binding]; other site 458817011734 dimer interface [polypeptide binding]; other site 458817011735 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 458817011736 DNA methylase; Region: N6_N4_Mtase; cl17433 458817011737 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 458817011738 S-adenosylmethionine binding site [chemical binding]; other site 458817011739 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 458817011740 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 458817011741 FMN binding site [chemical binding]; other site 458817011742 active site 458817011743 catalytic residues [active] 458817011744 substrate binding site [chemical binding]; other site 458817011745 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 458817011746 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 458817011747 multifunctional aminopeptidase A; Provisional; Region: PRK00913 458817011748 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 458817011749 interface (dimer of trimers) [polypeptide binding]; other site 458817011750 Substrate-binding/catalytic site; other site 458817011751 Zn-binding sites [ion binding]; other site 458817011752 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 458817011753 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 458817011754 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 458817011755 carboxyltransferase (CT) interaction site; other site 458817011756 biotinylation site [posttranslational modification]; other site 458817011757 Outer membrane efflux protein; Region: OEP; pfam02321 458817011758 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 458817011759 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 458817011760 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 458817011761 Hemerythrin-like domain; Region: Hr-like; cd12108 458817011762 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 458817011763 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 458817011764 motif II; other site 458817011765 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 458817011766 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 458817011767 active site 458817011768 DNA binding site [nucleotide binding] 458817011769 Int/Topo IB signature motif; other site 458817011770 Protein of unknown function, DUF484; Region: DUF484; cl17449 458817011771 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 458817011772 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 458817011773 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 458817011774 diaminopimelate decarboxylase; Region: lysA; TIGR01048 458817011775 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 458817011776 active site 458817011777 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 458817011778 substrate binding site [chemical binding]; other site 458817011779 catalytic residues [active] 458817011780 dimer interface [polypeptide binding]; other site 458817011781 Frataxin-like domain; Region: Frataxin_Cyay; pfam01491 458817011782 putative iron binding site [ion binding]; other site 458817011783 adenylate cyclase; Provisional; Region: cyaA; PRK09450 458817011784 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 458817011785 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 458817011786 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 458817011787 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 458817011788 domain interfaces; other site 458817011789 active site 458817011790 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 458817011791 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 458817011792 active site 458817011793 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 458817011794 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 458817011795 HemY protein N-terminus; Region: HemY_N; pfam07219 458817011796 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011797 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011798 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011799 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011800 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011801 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011802 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011803 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011804 VCBS repeat; Region: VCBS_repeat; TIGR01965 458817011805 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 458817011806 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 458817011807 Ca2+ binding site [ion binding]; other site 458817011808 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 458817011809 metal ion-dependent adhesion site (MIDAS); other site 458817011810 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 458817011811 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 458817011812 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 458817011813 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 458817011814 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 458817011815 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 458817011816 Walker A/P-loop; other site 458817011817 ATP binding site [chemical binding]; other site 458817011818 Q-loop/lid; other site 458817011819 ABC transporter signature motif; other site 458817011820 Walker B; other site 458817011821 D-loop; other site 458817011822 H-loop/switch region; other site 458817011823 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 458817011824 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817011825 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817011826 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 458817011827 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 458817011828 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817011829 ligand binding site [chemical binding]; other site 458817011830 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 458817011831 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 458817011832 dimerization interface [polypeptide binding]; other site 458817011833 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817011834 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011835 metal binding site [ion binding]; metal-binding site 458817011836 active site 458817011837 I-site; other site 458817011838 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 458817011839 GAF domain; Region: GAF_3; pfam13492 458817011840 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 458817011841 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 458817011842 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 458817011843 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817011844 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011845 metal binding site [ion binding]; metal-binding site 458817011846 active site 458817011847 I-site; other site 458817011848 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 458817011849 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 458817011850 Part of AAA domain; Region: AAA_19; pfam13245 458817011851 Family description; Region: UvrD_C_2; pfam13538 458817011852 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817011853 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817011854 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817011855 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 458817011856 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817011857 multidrug efflux protein; Reviewed; Region: PRK09579 458817011858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 458817011859 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 458817011860 active site 458817011861 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 458817011862 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 458817011863 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 458817011864 putative DNA binding site [nucleotide binding]; other site 458817011865 putative Zn2+ binding site [ion binding]; other site 458817011866 AsnC family; Region: AsnC_trans_reg; pfam01037 458817011867 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 458817011868 Na2 binding site [ion binding]; other site 458817011869 putative substrate binding site 1 [chemical binding]; other site 458817011870 Na binding site 1 [ion binding]; other site 458817011871 putative substrate binding site 2 [chemical binding]; other site 458817011872 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 458817011873 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 458817011874 N-terminal plug; other site 458817011875 ligand-binding site [chemical binding]; other site 458817011876 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 458817011877 homodimer interface [polypeptide binding]; other site 458817011878 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817011879 catalytic residue [active] 458817011880 threonine dehydratase; Reviewed; Region: PRK09224 458817011881 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 458817011882 tetramer interface [polypeptide binding]; other site 458817011883 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817011884 catalytic residue [active] 458817011885 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 458817011886 putative Ile/Val binding site [chemical binding]; other site 458817011887 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 458817011888 putative Ile/Val binding site [chemical binding]; other site 458817011889 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 458817011890 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 458817011891 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 458817011892 homodimer interface [polypeptide binding]; other site 458817011893 substrate-cofactor binding pocket; other site 458817011894 catalytic residue [active] 458817011895 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 458817011896 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 458817011897 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 458817011898 PYR/PP interface [polypeptide binding]; other site 458817011899 dimer interface [polypeptide binding]; other site 458817011900 TPP binding site [chemical binding]; other site 458817011901 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 458817011902 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 458817011903 TPP-binding site [chemical binding]; other site 458817011904 dimer interface [polypeptide binding]; other site 458817011905 ketol-acid reductoisomerase; Validated; Region: PRK05225 458817011906 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 458817011907 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 458817011908 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 458817011909 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817011910 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 458817011911 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 458817011912 putative dimerization interface [polypeptide binding]; other site 458817011913 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817011914 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817011915 metal binding site [ion binding]; metal-binding site 458817011916 active site 458817011917 I-site; other site 458817011918 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 458817011919 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817011920 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 458817011921 substrate binding pocket [chemical binding]; other site 458817011922 dimerization interface [polypeptide binding]; other site 458817011923 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817011924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817011925 LysR substrate binding domain; Region: LysR_substrate; pfam03466 458817011926 dimerization interface [polypeptide binding]; other site 458817011927 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 458817011928 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 458817011929 Predicted oxidoreductase [General function prediction only]; Region: COG3573 458817011930 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 458817011931 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 458817011932 active sites [active] 458817011933 tetramer interface [polypeptide binding]; other site 458817011934 PAS fold; Region: PAS_3; pfam08447 458817011935 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817011936 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817011937 dimer interface [polypeptide binding]; other site 458817011938 putative CheW interface [polypeptide binding]; other site 458817011939 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 458817011940 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817011941 active site 458817011942 phosphorylation site [posttranslational modification] 458817011943 intermolecular recognition site; other site 458817011944 dimerization interface [polypeptide binding]; other site 458817011945 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 458817011946 DNA binding site [nucleotide binding] 458817011947 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817011948 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 458817011949 dimer interface [polypeptide binding]; other site 458817011950 phosphorylation site [posttranslational modification] 458817011951 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 458817011952 ATP binding site [chemical binding]; other site 458817011953 Mg2+ binding site [ion binding]; other site 458817011954 G-X-G motif; other site 458817011955 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 458817011956 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 458817011957 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817011958 Walker A motif; other site 458817011959 ATP binding site [chemical binding]; other site 458817011960 Walker B motif; other site 458817011961 arginine finger; other site 458817011962 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 458817011963 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 458817011964 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 458817011965 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 458817011966 putative acyl-acceptor binding pocket; other site 458817011967 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 458817011968 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 458817011969 putative acyl-acceptor binding pocket; other site 458817011970 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 458817011971 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 458817011972 homodimer interface [polypeptide binding]; other site 458817011973 substrate-cofactor binding pocket; other site 458817011974 catalytic residue [active] 458817011975 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817011976 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817011977 L-aspartate oxidase; Provisional; Region: PRK06175 458817011978 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 458817011979 L-aspartate oxidase; Provisional; Region: PRK06175 458817011980 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 458817011981 heme-binding residues [chemical binding]; other site 458817011982 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 458817011983 Cupin domain; Region: Cupin_2; cl17218 458817011984 Surface antigen; Region: Bac_surface_Ag; pfam01103 458817011985 Protein of unknown function (DUF4056); Region: DUF4056; pfam13265 458817011986 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 458817011987 TAP-like protein; Region: Abhydrolase_4; pfam08386 458817011988 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 458817011989 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 458817011990 Protein of unknown function (DUF770); Region: DUF770; cl01402 458817011991 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 458817011992 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 458817011993 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 458817011994 catalytic residues [active] 458817011995 hinge region; other site 458817011996 alpha helical domain; other site 458817011997 serine/threonine protein kinase; Provisional; Region: PRK11768 458817011998 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 458817011999 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 458817012000 Uncharacterized conserved protein [Function unknown]; Region: COG0397 458817012001 hypothetical protein; Validated; Region: PRK00029 458817012002 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 458817012003 Response regulator receiver domain; Region: Response_reg; pfam00072 458817012004 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817012005 active site 458817012006 phosphorylation site [posttranslational modification] 458817012007 intermolecular recognition site; other site 458817012008 dimerization interface [polypeptide binding]; other site 458817012009 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 458817012010 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 458817012011 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 458817012012 anti sigma factor interaction site; other site 458817012013 regulatory phosphorylation site [posttranslational modification]; other site 458817012014 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 458817012015 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 458817012016 active site 458817012017 Substrate binding site; other site 458817012018 Mg++ binding site; other site 458817012019 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 458817012020 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 458817012021 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 458817012022 ATP binding site [chemical binding]; other site 458817012023 Mg2+ binding site [ion binding]; other site 458817012024 G-X-G motif; other site 458817012025 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 458817012026 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 458817012027 DXD motif; other site 458817012028 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 458817012029 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 458817012030 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 458817012031 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 458817012032 active site 458817012033 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 458817012034 putative binding surface; other site 458817012035 active site 458817012036 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 458817012037 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 458817012038 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 458817012039 Nitrate and nitrite sensing; Region: NIT; pfam08376 458817012040 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 458817012041 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 458817012042 dimer interface [polypeptide binding]; other site 458817012043 phosphorylation site [posttranslational modification] 458817012044 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 458817012045 ATP binding site [chemical binding]; other site 458817012046 Mg2+ binding site [ion binding]; other site 458817012047 G-X-G motif; other site 458817012048 Response regulator receiver domain; Region: Response_reg; pfam00072 458817012049 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 458817012050 active site 458817012051 phosphorylation site [posttranslational modification] 458817012052 intermolecular recognition site; other site 458817012053 dimerization interface [polypeptide binding]; other site 458817012054 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 458817012055 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817012056 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 458817012057 tetrathionate reductase subunit A; Provisional; Region: PRK14991 458817012058 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 458817012059 putative [Fe4-S4] binding site [ion binding]; other site 458817012060 putative molybdopterin cofactor binding site [chemical binding]; other site 458817012061 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 458817012062 putative molybdopterin cofactor binding site; other site 458817012063 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 458817012064 4Fe-4S binding domain; Region: Fer4; pfam00037 458817012065 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817012066 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817012067 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 458817012068 dimerization interface [polypeptide binding]; other site 458817012069 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 458817012070 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 458817012071 putative [4Fe-4S] binding site [ion binding]; other site 458817012072 putative molybdopterin cofactor binding site [chemical binding]; other site 458817012073 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 458817012074 molybdopterin cofactor binding site; other site 458817012075 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 458817012076 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 458817012077 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 458817012078 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 458817012079 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817012080 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 458817012081 trimer interface [polypeptide binding]; other site 458817012082 eyelet of channel; other site 458817012083 Cache domain; Region: Cache_1; pfam02743 458817012084 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 458817012085 dimerization interface [polypeptide binding]; other site 458817012086 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 458817012087 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 458817012088 dimer interface [polypeptide binding]; other site 458817012089 putative CheW interface [polypeptide binding]; other site 458817012090 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 458817012091 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 458817012092 putative acyl-acceptor binding pocket; other site 458817012093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817012094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817012095 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 458817012096 dimerization interface [polypeptide binding]; other site 458817012097 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 458817012098 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 458817012099 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 458817012100 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 458817012101 putative [4Fe-4S] binding site [ion binding]; other site 458817012102 putative molybdopterin cofactor binding site [chemical binding]; other site 458817012103 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 458817012104 molybdopterin cofactor binding site; other site 458817012105 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 458817012106 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 458817012107 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 458817012108 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 458817012109 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 458817012110 trimer interface [polypeptide binding]; other site 458817012111 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 458817012112 eyelet of channel; other site 458817012113 Uncharacterized conserved protein [Function unknown]; Region: COG3339 458817012114 hypothetical protein; Provisional; Region: PRK01254 458817012115 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 458817012116 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 458817012117 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 458817012118 MAPEG family; Region: MAPEG; cl09190 458817012119 Uncharacterized conserved protein [Function unknown]; Region: COG2966 458817012120 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 458817012121 Uncharacterized conserved protein [Function unknown]; Region: COG3610 458817012122 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 458817012123 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 458817012124 S-formylglutathione hydrolase; Region: PLN02442 458817012125 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 458817012126 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 458817012127 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 458817012128 substrate binding site [chemical binding]; other site 458817012129 catalytic Zn binding site [ion binding]; other site 458817012130 NAD binding site [chemical binding]; other site 458817012131 structural Zn binding site [ion binding]; other site 458817012132 dimer interface [polypeptide binding]; other site 458817012133 hypothetical protein; Provisional; Region: PRK11019 458817012134 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 458817012135 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 458817012136 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 458817012137 dimer interface [polypeptide binding]; other site 458817012138 active site 458817012139 metal binding site [ion binding]; metal-binding site 458817012140 Transcriptional regulator [Transcription]; Region: LysR; COG0583 458817012141 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817012142 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 458817012143 putative effector binding pocket; other site 458817012144 putative dimerization interface [polypeptide binding]; other site 458817012145 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 458817012146 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 458817012147 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 458817012148 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 458817012149 FeS/SAM binding site; other site 458817012150 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 458817012151 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 458817012152 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 458817012153 Sulfatase; Region: Sulfatase; pfam00884 458817012154 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 458817012155 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 458817012156 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817012157 dimer interface [polypeptide binding]; other site 458817012158 conserved gate region; other site 458817012159 putative PBP binding loops; other site 458817012160 ABC-ATPase subunit interface; other site 458817012161 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 458817012162 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 458817012163 Walker A/P-loop; other site 458817012164 ATP binding site [chemical binding]; other site 458817012165 Q-loop/lid; other site 458817012166 ABC transporter signature motif; other site 458817012167 Walker B; other site 458817012168 D-loop; other site 458817012169 H-loop/switch region; other site 458817012170 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 458817012171 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 458817012172 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 458817012173 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 458817012174 Competence protein CoiA-like family; Region: CoiA; cl11541 458817012175 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 458817012176 active site 458817012177 DNA binding site [nucleotide binding] 458817012178 Int/Topo IB signature motif; other site 458817012179 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 458817012180 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817012181 Walker A motif; other site 458817012182 ATP binding site [chemical binding]; other site 458817012183 Walker B motif; other site 458817012184 arginine finger; other site 458817012185 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 458817012186 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817012187 Walker A motif; other site 458817012188 ATP binding site [chemical binding]; other site 458817012189 Walker B motif; other site 458817012190 arginine finger; other site 458817012191 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 458817012192 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 458817012193 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 458817012194 DNA binding site [nucleotide binding] 458817012195 substrate interaction site [chemical binding]; other site 458817012196 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 458817012197 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 458817012198 Protein of unknown function DUF3258; Region: DUF3258; pfam11646 458817012199 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 458817012200 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 458817012201 active site 458817012202 Int/Topo IB signature motif; other site 458817012203 DNA binding site [nucleotide binding] 458817012204 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 458817012205 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 458817012206 putative SAM binding site [chemical binding]; other site 458817012207 putative homodimer interface [polypeptide binding]; other site 458817012208 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 458817012209 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 458817012210 putative ligand binding site [chemical binding]; other site 458817012211 hypothetical protein; Reviewed; Region: PRK12497 458817012212 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 458817012213 dimer interface [polypeptide binding]; other site 458817012214 active site 458817012215 outer membrane lipoprotein; Provisional; Region: PRK11023 458817012216 BON domain; Region: BON; pfam04972 458817012217 BON domain; Region: BON; pfam04972 458817012218 EamA-like transporter family; Region: EamA; pfam00892 458817012219 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 458817012220 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 458817012221 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 458817012222 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 458817012223 dimerization interface [polypeptide binding]; other site 458817012224 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 458817012225 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 458817012226 active site 458817012227 HIGH motif; other site 458817012228 dimer interface [polypeptide binding]; other site 458817012229 KMSKS motif; other site 458817012230 phosphoglycolate phosphatase; Provisional; Region: PRK13222 458817012231 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 458817012232 motif II; other site 458817012233 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 458817012234 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 458817012235 substrate binding site [chemical binding]; other site 458817012236 hexamer interface [polypeptide binding]; other site 458817012237 metal binding site [ion binding]; metal-binding site 458817012238 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 458817012239 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 458817012240 AAA domain; Region: AAA_22; pfam13401 458817012241 Sporulation related domain; Region: SPOR; pfam05036 458817012242 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 458817012243 active site 458817012244 dimer interface [polypeptide binding]; other site 458817012245 metal binding site [ion binding]; metal-binding site 458817012246 shikimate kinase; Reviewed; Region: aroK; PRK00131 458817012247 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 458817012248 ADP binding site [chemical binding]; other site 458817012249 magnesium binding site [ion binding]; other site 458817012250 putative shikimate binding site; other site 458817012251 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 458817012252 Secretin and TonB N terminus short domain; Region: STN; pfam07660 458817012253 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 458817012254 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 458817012255 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 458817012256 Pilus assembly protein, PilP; Region: PilP; pfam04351 458817012257 Pilus assembly protein, PilO; Region: PilO; pfam04350 458817012258 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 458817012259 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 458817012260 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 458817012261 Competence protein A; Region: Competence_A; pfam11104 458817012262 nucleotide binding site [chemical binding]; other site 458817012263 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 458817012264 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 458817012265 Transglycosylase; Region: Transgly; pfam00912 458817012266 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 458817012267 argininosuccinate lyase; Provisional; Region: PRK04833 458817012268 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 458817012269 active sites [active] 458817012270 tetramer interface [polypeptide binding]; other site 458817012271 argininosuccinate synthase; Provisional; Region: PRK13820 458817012272 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 458817012273 ANP binding site [chemical binding]; other site 458817012274 Substrate Binding Site II [chemical binding]; other site 458817012275 Substrate Binding Site I [chemical binding]; other site 458817012276 ornithine carbamoyltransferase; Provisional; Region: PRK14805 458817012277 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 458817012278 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 458817012279 acetylglutamate kinase; Provisional; Region: PRK00942 458817012280 nucleotide binding site [chemical binding]; other site 458817012281 substrate binding site [chemical binding]; other site 458817012282 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 458817012283 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 458817012284 acetylornithine deacetylase; Provisional; Region: PRK05111 458817012285 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 458817012286 metal binding site [ion binding]; metal-binding site 458817012287 putative dimer interface [polypeptide binding]; other site 458817012288 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 458817012289 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 458817012290 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 458817012291 competence damage-inducible protein A; Provisional; Region: PRK00549 458817012292 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 458817012293 putative MPT binding site; other site 458817012294 Competence-damaged protein; Region: CinA; pfam02464 458817012295 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 458817012296 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 458817012297 catalytic residues [active] 458817012298 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 458817012299 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 458817012300 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 458817012301 catalytic residues [active] 458817012302 central insert; other site 458817012303 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 458817012304 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 458817012305 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 458817012306 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 458817012307 binding surface 458817012308 TPR motif; other site 458817012309 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 458817012310 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 458817012311 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 458817012312 Walker A/P-loop; other site 458817012313 ATP binding site [chemical binding]; other site 458817012314 Q-loop/lid; other site 458817012315 ABC transporter signature motif; other site 458817012316 Walker B; other site 458817012317 D-loop; other site 458817012318 H-loop/switch region; other site 458817012319 CcmB protein; Region: CcmB; pfam03379 458817012320 heme exporter protein CcmC; Region: ccmC; TIGR01191 458817012321 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 458817012322 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 458817012323 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 458817012324 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 458817012325 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 458817012326 alphaNTD homodimer interface [polypeptide binding]; other site 458817012327 alphaNTD - beta interaction site [polypeptide binding]; other site 458817012328 alphaNTD - beta' interaction site [polypeptide binding]; other site 458817012329 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 458817012330 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 458817012331 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 458817012332 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 458817012333 RNA binding surface [nucleotide binding]; other site 458817012334 30S ribosomal protein S11; Validated; Region: PRK05309 458817012335 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 458817012336 30S ribosomal protein S13; Region: bact_S13; TIGR03631 458817012337 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 458817012338 SecY translocase; Region: SecY; pfam00344 458817012339 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 458817012340 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 458817012341 23S rRNA binding site [nucleotide binding]; other site 458817012342 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 458817012343 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 458817012344 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 458817012345 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 458817012346 5S rRNA interface [nucleotide binding]; other site 458817012347 23S rRNA interface [nucleotide binding]; other site 458817012348 L5 interface [polypeptide binding]; other site 458817012349 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 458817012350 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 458817012351 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 458817012352 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 458817012353 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 458817012354 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 458817012355 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 458817012356 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 458817012357 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 458817012358 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 458817012359 RNA binding site [nucleotide binding]; other site 458817012360 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 458817012361 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 458817012362 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 458817012363 23S rRNA interface [nucleotide binding]; other site 458817012364 putative translocon interaction site; other site 458817012365 signal recognition particle (SRP54) interaction site; other site 458817012366 L23 interface [polypeptide binding]; other site 458817012367 trigger factor interaction site; other site 458817012368 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 458817012369 23S rRNA interface [nucleotide binding]; other site 458817012370 5S rRNA interface [nucleotide binding]; other site 458817012371 putative antibiotic binding site [chemical binding]; other site 458817012372 L25 interface [polypeptide binding]; other site 458817012373 L27 interface [polypeptide binding]; other site 458817012374 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 458817012375 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 458817012376 G-X-X-G motif; other site 458817012377 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 458817012378 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 458817012379 putative translocon binding site; other site 458817012380 protein-rRNA interface [nucleotide binding]; other site 458817012381 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 458817012382 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 458817012383 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 458817012384 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 458817012385 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 458817012386 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 458817012387 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 458817012388 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 458817012389 elongation factor Tu; Reviewed; Region: PRK00049 458817012390 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 458817012391 G1 box; other site 458817012392 GEF interaction site [polypeptide binding]; other site 458817012393 GTP/Mg2+ binding site [chemical binding]; other site 458817012394 Switch I region; other site 458817012395 G2 box; other site 458817012396 G3 box; other site 458817012397 Switch II region; other site 458817012398 G4 box; other site 458817012399 G5 box; other site 458817012400 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 458817012401 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 458817012402 Antibiotic Binding Site [chemical binding]; other site 458817012403 elongation factor G; Reviewed; Region: PRK00007 458817012404 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 458817012405 G1 box; other site 458817012406 putative GEF interaction site [polypeptide binding]; other site 458817012407 GTP/Mg2+ binding site [chemical binding]; other site 458817012408 Switch I region; other site 458817012409 G2 box; other site 458817012410 G3 box; other site 458817012411 Switch II region; other site 458817012412 G4 box; other site 458817012413 G5 box; other site 458817012414 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 458817012415 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 458817012416 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 458817012417 30S ribosomal protein S7; Validated; Region: PRK05302 458817012418 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 458817012419 S17 interaction site [polypeptide binding]; other site 458817012420 S8 interaction site; other site 458817012421 16S rRNA interaction site [nucleotide binding]; other site 458817012422 streptomycin interaction site [chemical binding]; other site 458817012423 23S rRNA interaction site [nucleotide binding]; other site 458817012424 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 458817012425 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 458817012426 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 458817012427 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 458817012428 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 458817012429 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 458817012430 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 458817012431 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 458817012432 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 458817012433 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 458817012434 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 458817012435 DNA binding site [nucleotide binding] 458817012436 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 458817012437 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 458817012438 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 458817012439 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 458817012440 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 458817012441 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 458817012442 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 458817012443 RPB3 interaction site [polypeptide binding]; other site 458817012444 RPB1 interaction site [polypeptide binding]; other site 458817012445 RPB11 interaction site [polypeptide binding]; other site 458817012446 RPB10 interaction site [polypeptide binding]; other site 458817012447 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 458817012448 core dimer interface [polypeptide binding]; other site 458817012449 peripheral dimer interface [polypeptide binding]; other site 458817012450 L10 interface [polypeptide binding]; other site 458817012451 L11 interface [polypeptide binding]; other site 458817012452 putative EF-Tu interaction site [polypeptide binding]; other site 458817012453 putative EF-G interaction site [polypeptide binding]; other site 458817012454 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 458817012455 23S rRNA interface [nucleotide binding]; other site 458817012456 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 458817012457 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 458817012458 mRNA/rRNA interface [nucleotide binding]; other site 458817012459 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 458817012460 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 458817012461 23S rRNA interface [nucleotide binding]; other site 458817012462 L7/L12 interface [polypeptide binding]; other site 458817012463 putative thiostrepton binding site; other site 458817012464 L25 interface [polypeptide binding]; other site 458817012465 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 458817012466 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 458817012467 putative homodimer interface [polypeptide binding]; other site 458817012468 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 458817012469 heterodimer interface [polypeptide binding]; other site 458817012470 homodimer interface [polypeptide binding]; other site 458817012471 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 458817012472 elongation factor Tu; Reviewed; Region: PRK00049 458817012473 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 458817012474 G1 box; other site 458817012475 GEF interaction site [polypeptide binding]; other site 458817012476 GTP/Mg2+ binding site [chemical binding]; other site 458817012477 Switch I region; other site 458817012478 G2 box; other site 458817012479 G3 box; other site 458817012480 Switch II region; other site 458817012481 G4 box; other site 458817012482 G5 box; other site 458817012483 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 458817012484 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 458817012485 Antibiotic Binding Site [chemical binding]; other site 458817012486 pantothenate kinase; Provisional; Region: PRK05439 458817012487 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 458817012488 ATP-binding site [chemical binding]; other site 458817012489 CoA-binding site [chemical binding]; other site 458817012490 Mg2+-binding site [ion binding]; other site 458817012491 Biotin operon repressor [Transcription]; Region: BirA; COG1654 458817012492 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 458817012493 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 458817012494 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 458817012495 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 458817012496 FAD binding domain; Region: FAD_binding_4; pfam01565 458817012497 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 458817012498 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 458817012499 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 458817012500 glutamate racemase; Provisional; Region: PRK00865 458817012501 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 458817012502 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 458817012503 S-adenosylmethionine binding site [chemical binding]; other site 458817012504 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 458817012505 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817012506 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 458817012507 Fatty acid desaturase; Region: FA_desaturase; pfam00487 458817012508 Di-iron ligands [ion binding]; other site 458817012509 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 458817012510 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 458817012511 selenophosphate synthetase; Provisional; Region: PRK00943 458817012512 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 458817012513 dimerization interface [polypeptide binding]; other site 458817012514 putative ATP binding site [chemical binding]; other site 458817012515 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 458817012516 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 458817012517 active site residue [active] 458817012518 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 458817012519 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 458817012520 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 458817012521 Coenzyme A binding pocket [chemical binding]; other site 458817012522 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 458817012523 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 458817012524 active site 458817012525 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 458817012526 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 458817012527 dimer interface [polypeptide binding]; other site 458817012528 ADP-ribose binding site [chemical binding]; other site 458817012529 active site 458817012530 nudix motif; other site 458817012531 metal binding site [ion binding]; metal-binding site 458817012532 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 458817012533 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 458817012534 motif II; other site 458817012535 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 458817012536 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 458817012537 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 458817012538 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 458817012539 GspL periplasmic domain; Region: GspL_C; pfam12693 458817012540 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 458817012541 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 458817012542 type II secretion system protein J; Region: gspJ; TIGR01711 458817012543 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 458817012544 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 458817012545 type II secretion system protein I; Region: gspI; TIGR01707 458817012546 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 458817012547 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 458817012548 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 458817012549 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 458817012550 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 458817012551 type II secretion system protein F; Region: GspF; TIGR02120 458817012552 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 458817012553 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 458817012554 type II secretion system protein E; Region: type_II_gspE; TIGR02533 458817012555 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 458817012556 Walker A motif; other site 458817012557 ATP binding site [chemical binding]; other site 458817012558 Walker B motif; other site 458817012559 type II secretion system protein D; Region: type_II_gspD; TIGR02517 458817012560 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 458817012561 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 458817012562 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 458817012563 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 458817012564 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 458817012565 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 458817012566 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 458817012567 RNA binding surface [nucleotide binding]; other site 458817012568 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 458817012569 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 458817012570 dimerization interface [polypeptide binding]; other site 458817012571 domain crossover interface; other site 458817012572 redox-dependent activation switch; other site 458817012573 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 458817012574 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 458817012575 active site 458817012576 substrate-binding site [chemical binding]; other site 458817012577 metal-binding site [ion binding] 458817012578 ATP binding site [chemical binding]; other site 458817012579 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 458817012580 non-specific DNA binding site [nucleotide binding]; other site 458817012581 salt bridge; other site 458817012582 sequence-specific DNA binding site [nucleotide binding]; other site 458817012583 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 458817012584 putative active site [active] 458817012585 Zn binding site [ion binding]; other site 458817012586 Methyltransferase domain; Region: Methyltransf_31; pfam13847 458817012587 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 458817012588 S-adenosylmethionine binding site [chemical binding]; other site 458817012589 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 458817012590 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 458817012591 Catalytic site [active] 458817012592 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 458817012593 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 458817012594 GIY-YIG motif/motif A; other site 458817012595 putative active site [active] 458817012596 putative metal binding site [ion binding]; other site 458817012597 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 458817012598 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 458817012599 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 458817012600 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 458817012601 Nitrate and nitrite sensing; Region: NIT; pfam08376 458817012602 HAMP domain; Region: HAMP; pfam00672 458817012603 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 458817012604 PAS domain; Region: PAS_9; pfam13426 458817012605 putative active site [active] 458817012606 heme pocket [chemical binding]; other site 458817012607 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 458817012608 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 458817012609 metal binding site [ion binding]; metal-binding site 458817012610 active site 458817012611 I-site; other site 458817012612 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 458817012613 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 458817012614 Ferritin-like domain; Region: Ferritin; pfam00210 458817012615 ferroxidase diiron center [ion binding]; other site 458817012616 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 458817012617 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 458817012618 dimer interface [polypeptide binding]; other site 458817012619 putative functional site; other site 458817012620 putative MPT binding site; other site 458817012621 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 458817012622 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 458817012623 ATP binding site [chemical binding]; other site 458817012624 substrate interface [chemical binding]; other site 458817012625 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 458817012626 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 458817012627 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 458817012628 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 458817012629 tetramer interface [polypeptide binding]; other site 458817012630 heme binding pocket [chemical binding]; other site 458817012631 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 458817012632 Domain of unknown function (DUF333); Region: DUF333; pfam03891 458817012633 Domain of unknown function (DUF333); Region: DUF333; pfam03891 458817012634 Domain of unknown function (DUF333); Region: DUF333; pfam03891 458817012635 Domain of unknown function (DUF333); Region: DUF333; pfam03891 458817012636 Domain of unknown function (DUF333); Region: DUF333; pfam03891 458817012637 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817012638 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 458817012639 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 458817012640 DNA binding residues [nucleotide binding] 458817012641 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 458817012642 hypothetical protein; Provisional; Region: PRK05409 458817012643 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 458817012644 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 458817012645 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 458817012646 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 458817012647 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458817012648 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 458817012649 putative ADP-binding pocket [chemical binding]; other site 458817012650 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 458817012651 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 458817012652 putative metal binding site; other site 458817012653 Exopolysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: COG5039 458817012654 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 458817012655 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 458817012656 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 458817012657 active site 458817012658 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 458817012659 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 458817012660 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 458817012661 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 458817012662 putative ADP-binding pocket [chemical binding]; other site 458817012663 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 458817012664 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 458817012665 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 458817012666 putative active site [active] 458817012667 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 458817012668 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 458817012669 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 458817012670 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 458817012671 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 458817012672 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 458817012673 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 458817012674 Bacterial transcriptional repressor; Region: TetR; pfam13972 458817012675 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 458817012676 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 458817012677 substrate-cofactor binding pocket; other site 458817012678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 458817012679 catalytic residue [active] 458817012680 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 458817012681 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 458817012682 NAD(P) binding site [chemical binding]; other site 458817012683 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 458817012684 active site residue [active] 458817012685 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 458817012686 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 458817012687 Rhomboid family; Region: Rhomboid; pfam01694 458817012688 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 458817012689 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 458817012690 conserved cys residue [active] 458817012691 DNA polymerase I; Provisional; Region: PRK05755 458817012692 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 458817012693 active site 458817012694 metal binding site 1 [ion binding]; metal-binding site 458817012695 putative 5' ssDNA interaction site; other site 458817012696 metal binding site 3; metal-binding site 458817012697 metal binding site 2 [ion binding]; metal-binding site 458817012698 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 458817012699 putative DNA binding site [nucleotide binding]; other site 458817012700 putative metal binding site [ion binding]; other site 458817012701 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 458817012702 active site 458817012703 catalytic site [active] 458817012704 substrate binding site [chemical binding]; other site 458817012705 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 458817012706 active site 458817012707 DNA binding site [nucleotide binding] 458817012708 catalytic site [active] 458817012709 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 458817012710 G1 box; other site 458817012711 GTP/Mg2+ binding site [chemical binding]; other site 458817012712 Switch I region; other site 458817012713 G2 box; other site 458817012714 G3 box; other site 458817012715 Switch II region; other site 458817012716 G4 box; other site 458817012717 G5 box; other site 458817012718 Cytochrome c553 [Energy production and conversion]; Region: COG2863 458817012719 Cytochrome c; Region: Cytochrom_C; cl11414 458817012720 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 458817012721 Methyltransferase domain; Region: Methyltransf_23; pfam13489 458817012722 Der GTPase activator; Provisional; Region: PRK05244 458817012723 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 458817012724 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 458817012725 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 458817012726 FeS/SAM binding site; other site 458817012727 HemN C-terminal domain; Region: HemN_C; pfam06969 458817012728 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 458817012729 lysophospholipase L2; Provisional; Region: PRK10749 458817012730 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 458817012731 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 458817012732 FHIPEP family; Region: FHIPEP; pfam00771 458817012733 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 458817012734 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 458817012735 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 458817012736 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 458817012737 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 458817012738 flagellar motor switch protein FliN; Region: fliN; TIGR02480 458817012739 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 458817012740 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 458817012741 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817012742 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 458817012743 ligand binding site [chemical binding]; other site 458817012744 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 458817012745 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 458817012746 Walker A motif; other site 458817012747 ATP binding site [chemical binding]; other site 458817012748 Walker B motif; other site 458817012749 arginine finger; other site 458817012750 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 458817012751 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 458817012752 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 458817012753 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 458817012754 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 458817012755 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 458817012756 FliG C-terminal domain; Region: FliG_C; pfam01706 458817012757 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 458817012758 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 458817012759 Flagellar assembly protein FliH; Region: FliH; pfam02108 458817012760 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 458817012761 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 458817012762 Walker A motif; other site 458817012763 ATP binding site [chemical binding]; other site 458817012764 Walker B motif; other site 458817012765 FlgN protein; Region: FlgN; pfam05130 458817012766 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 458817012767 SAF-like; Region: SAF_2; pfam13144 458817012768 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 458817012769 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 458817012770 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 458817012771 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 458817012772 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 458817012773 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 458817012774 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 458817012775 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 458817012776 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 458817012777 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 458817012778 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 458817012779 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 458817012780 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 458817012781 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 458817012782 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 458817012783 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 458817012784 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 458817012785 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 458817012786 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 458817012787 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 458817012788 peptidoglycan hydrolase; Reviewed; Region: flgJ; PRK12708 458817012789 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 458817012790 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 458817012791 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 458817012792 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 458817012793 flagellin; Provisional; Region: PRK12802 458817012794 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 458817012795 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 458817012796 flagellar capping protein; Reviewed; Region: fliD; PRK08032 458817012797 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 458817012798 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 458817012799 Flagellar protein FliS; Region: FliS; cl00654 458817012800 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 458817012801 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 458817012802 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 458817012803 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 458817012804 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 458817012805 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 458817012806 DNA binding residues [nucleotide binding] 458817012807 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 458817012808 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 458817012809 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 458817012810 hypothetical protein; Validated; Region: PRK06778 458817012811 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 458817012812 ligand binding site [chemical binding]; other site 458817012813 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 458817012814 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 458817012815 4Fe-4S binding domain; Region: Fer4_5; pfam12801 458817012816 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 458817012817 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 458817012818 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 458817012819 substrate binding site [chemical binding]; other site 458817012820 oxyanion hole (OAH) forming residues; other site 458817012821 trimer interface [polypeptide binding]; other site 458817012822 Predicted membrane protein [Function unknown]; Region: COG3205 458817012823 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 458817012824 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 458817012825 PBP superfamily domain; Region: PBP_like_2; cl17296 458817012826 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 458817012827 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 458817012828 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817012829 dimer interface [polypeptide binding]; other site 458817012830 conserved gate region; other site 458817012831 putative PBP binding loops; other site 458817012832 ABC-ATPase subunit interface; other site 458817012833 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 458817012834 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 458817012835 dimer interface [polypeptide binding]; other site 458817012836 conserved gate region; other site 458817012837 putative PBP binding loops; other site 458817012838 ABC-ATPase subunit interface; other site 458817012839 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14253 458817012840 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 458817012841 Walker A/P-loop; other site 458817012842 ATP binding site [chemical binding]; other site 458817012843 Q-loop/lid; other site 458817012844 ABC transporter signature motif; other site 458817012845 Walker B; other site 458817012846 D-loop; other site 458817012847 H-loop/switch region; other site 458817012848 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 458817012849 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 458817012850 active site 458817012851 Uncharacterized conserved protein [Function unknown]; Region: COG5441; cl02262 458817012852 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 458817012853 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 458817012854 DNA binding residues [nucleotide binding] 458817012855 dimerization interface [polypeptide binding]; other site 458817012856 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 458817012857 30S subunit binding site; other site 458817012858 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 458817012859 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 458817012860 glutaminase active site [active] 458817012861 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 458817012862 dimer interface [polypeptide binding]; other site 458817012863 active site 458817012864 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 458817012865 dimer interface [polypeptide binding]; other site 458817012866 active site 458817012867 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 458817012868 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 458817012869 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 458817012870 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 458817012871 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 458817012872 N-terminal plug; other site 458817012873 ligand-binding site [chemical binding]; other site 458817012874 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 458817012875 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 458817012876 Substrate binding site; other site 458817012877 Mg++ binding site; other site 458817012878 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 458817012879 active site 458817012880 substrate binding site [chemical binding]; other site 458817012881 CoA binding site [chemical binding]; other site 458817012882 DsrE/DsrF-like family; Region: DrsE; cl00672 458817012883 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 458817012884 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 458817012885 FtsX-like permease family; Region: FtsX; pfam02687 458817012886 FtsX-like permease family; Region: FtsX; pfam02687 458817012887 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 458817012888 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 458817012889 Walker A/P-loop; other site 458817012890 ATP binding site [chemical binding]; other site 458817012891 Q-loop/lid; other site 458817012892 ABC transporter signature motif; other site 458817012893 Walker B; other site 458817012894 D-loop; other site 458817012895 H-loop/switch region; other site 458817012896 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 458817012897 HlyD family secretion protein; Region: HlyD_3; pfam13437 458817012898 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 458817012899 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 458817012900 gamma subunit interface [polypeptide binding]; other site 458817012901 epsilon subunit interface [polypeptide binding]; other site 458817012902 LBP interface [polypeptide binding]; other site 458817012903 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 458817012904 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 458817012905 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 458817012906 alpha subunit interaction interface [polypeptide binding]; other site 458817012907 Walker A motif; other site 458817012908 ATP binding site [chemical binding]; other site 458817012909 Walker B motif; other site 458817012910 inhibitor binding site; inhibition site 458817012911 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 458817012912 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 458817012913 core domain interface [polypeptide binding]; other site 458817012914 delta subunit interface [polypeptide binding]; other site 458817012915 epsilon subunit interface [polypeptide binding]; other site 458817012916 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 458817012917 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 458817012918 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 458817012919 beta subunit interaction interface [polypeptide binding]; other site 458817012920 Walker A motif; other site 458817012921 ATP binding site [chemical binding]; other site 458817012922 Walker B motif; other site 458817012923 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 458817012924 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 458817012925 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 458817012926 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 458817012927 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 458817012928 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 458817012929 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 458817012930 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 458817012931 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 458817012932 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 458817012933 ParB-like nuclease domain; Region: ParBc; pfam02195 458817012934 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 458817012935 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 458817012936 P-loop; other site 458817012937 Magnesium ion binding site [ion binding]; other site 458817012938 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 458817012939 Magnesium ion binding site [ion binding]; other site 458817012940 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 458817012941 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 458817012942 S-adenosylmethionine binding site [chemical binding]; other site 458817012943 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 458817012944 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 458817012945 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 458817012946 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 458817012947 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 458817012948 FMN-binding protein MioC; Provisional; Region: PRK09004 458817012949 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 458817012950 active site 458817012951 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 458817012952 hypothetical protein; Provisional; Region: PRK01617 458817012953 SEC-C motif; Region: SEC-C; pfam02810 458817012954 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 458817012955 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 458817012956 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 458817012957 trmE is a tRNA modification GTPase; Region: trmE; cd04164 458817012958 G1 box; other site 458817012959 GTP/Mg2+ binding site [chemical binding]; other site 458817012960 Switch I region; other site 458817012961 G2 box; other site 458817012962 Switch II region; other site 458817012963 G3 box; other site 458817012964 G4 box; other site 458817012965 G5 box; other site 458817012966 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 458817012967 membrane protein insertase; Provisional; Region: PRK01318 458817012968 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 458817012969 Haemolytic domain; Region: Haemolytic; pfam01809 458817012970 ribonuclease P; Reviewed; Region: rnpA; PRK01732 458817012971 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399